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/srv/reproducible-results/rbuild-debian/tmp.fmMF2ksH34/b1/r-other-rajewsky-dropbead_0.3.1+git20180221.d746c6f+ds-3_i386.changes vs.
/srv/reproducible-results/rbuild-debian/tmp.fmMF2ksH34/b2/r-other-rajewsky-dropbead_0.3.1+git20180221.d746c6f+ds-3_i386.changes
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1 ·24bc4abbebbe8da56dc646ca28ba7549·250260·gnu-r·optional·r-other-rajewsky-dropbead_0.3.1+git20180221.d746c6f+ds-3_all.deb1 ·5cb3187244f79319e3487760008a575c·250332·gnu-r·optional·r-other-rajewsky-dropbead_0.3.1+git20180221.d746c6f+ds-3_all.deb
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r-other-rajewsky-dropbead_0.3.1+git20180221.d746c6f+ds-3_all.deb
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3 -rw-r--r--···0········0········0···248672·2020-09-19·20:24:00.000000·data.tar.xz3 -rw-r--r--···0········0········0···248744·2020-09-19·20:24:00.000000·data.tar.xz
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control.tar.xz
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control.tar
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./md5sums
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./md5sums
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data.tar.xz
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data.tar
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13 -rw-r--r--···0·root·········(0)·root·········(0)·····1390·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/Meta/hsearch.rds13 -rw-r--r--···0·root·········(0)·root·········(0)·····1390·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/Meta/hsearch.rds
14 -rw-r--r--···0·root·········(0)·root·········(0)······756·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/Meta/links.rds14 -rw-r--r--···0·root·········(0)·root·········(0)······756·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/Meta/links.rds
15 -rw-r--r--···0·root·········(0)·root·········(0)······214·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/Meta/nsInfo.rds15 -rw-r--r--···0·root·········(0)·root·········(0)······214·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/Meta/nsInfo.rds
16 -rw-r--r--···0·root·········(0)·root·········(0)······783·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/Meta/package.rds16 -rw-r--r--···0·root·········(0)·root·········(0)······783·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/Meta/package.rds
17 -rw-r--r--···0·root·········(0)·root·········(0)·······31·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/NAMESPACE17 -rw-r--r--···0·root·········(0)·root·········(0)·······31·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/NAMESPACE
18 drwxr-xr-x···0·root·········(0)·root·········(0)········0·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/R/18 drwxr-xr-x···0·root·········(0)·root·········(0)········0·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/R/
19 -rw-r--r--···0·root·········(0)·root·········(0)·····1058·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/R/dropbead19 -rw-r--r--···0·root·········(0)·root·········(0)·····1058·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/R/dropbead
20 -rw-r--r--···0·root·········(0)·root·········(0)···251589·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/R/dropbead.rdb20 -rw-r--r--···0·root·········(0)·root·········(0)···251593·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/R/dropbead.rdb
21 -rw-r--r--···0·root·········(0)·root·········(0)·····2607·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/R/dropbead.rdx21 -rw-r--r--···0·root·········(0)·root·········(0)·····2602·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/R/dropbead.rdx
22 drwxr-xr-x···0·root·········(0)·root·········(0)········0·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/data/22 drwxr-xr-x···0·root·········(0)·root·········(0)········0·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/data/
23 -rw-r--r--···0·root·········(0)·root·········(0)····38870·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/data/cell_cycle_genes.xlsx23 -rw-r--r--···0·root·········(0)·root·········(0)····38870·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/data/cell_cycle_genes.xlsx
24 drwxr-xr-x···0·root·········(0)·root·········(0)········0·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/help/24 drwxr-xr-x···0·root·········(0)·root·········(0)········0·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/help/
25 -rw-r--r--···0·root·········(0)·root·········(0)·····1622·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/help/AnIndex25 -rw-r--r--···0·root·········(0)·root·········(0)·····1622·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/help/AnIndex
26 -rw-r--r--···0·root·········(0)·root·········(0)······551·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/help/aliases.rds26 -rw-r--r--···0·root·········(0)·root·········(0)······551·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/help/aliases.rds
27 -rw-r--r--···0·root·········(0)·root·········(0)····43567·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/help/dropbead.rdb27 -rw-r--r--···0·root·········(0)·root·········(0)····43683·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/help/dropbead.rdb
28 -rw-r--r--···0·root·········(0)·root·········(0)·····1077·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/help/dropbead.rdx28 -rw-r--r--···0·root·········(0)·root·········(0)·····1076·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/help/dropbead.rdx
29 -rw-r--r--···0·root·········(0)·root·········(0)······638·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/help/paths.rds29 -rw-r--r--···0·root·········(0)·root·········(0)······643·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/help/paths.rds
30 drwxr-xr-x···0·root·········(0)·root·········(0)········0·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/html/30 drwxr-xr-x···0·root·········(0)·root·········(0)········0·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/html/
31 -rw-r--r--···0·root·········(0)·root·········(0)·····5877·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/html/00Index.html31 -rw-r--r--···0·root·········(0)·root·········(0)·····5877·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/html/00Index.html
32 -rw-r--r--···0·root·········(0)·root·········(0)·····1335·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/html/R.css32 -rw-r--r--···0·root·········(0)·root·········(0)·····1335·2020-09-19·20:24:00.000000·./usr/lib/R/site-library/dropbead/html/R.css
33 drwxr-xr-x···0·root·········(0)·root·········(0)········0·2020-09-19·20:24:00.000000·./usr/share/33 drwxr-xr-x···0·root·········(0)·root·········(0)········0·2020-09-19·20:24:00.000000·./usr/share/
34 drwxr-xr-x···0·root·········(0)·root·········(0)········0·2020-09-19·20:24:00.000000·./usr/share/doc/34 drwxr-xr-x···0·root·········(0)·root·········(0)········0·2020-09-19·20:24:00.000000·./usr/share/doc/
35 drwxr-xr-x···0·root·········(0)·root·········(0)········0·2020-09-19·20:24:00.000000·./usr/share/doc/r-other-rajewsky-dropbead/35 drwxr-xr-x···0·root·········(0)·root·········(0)········0·2020-09-19·20:24:00.000000·./usr/share/doc/r-other-rajewsky-dropbead/
36 -rw-r--r--···0·root·········(0)·root·········(0)······301·2020-09-19·20:24:00.000000·./usr/share/doc/r-other-rajewsky-dropbead/changelog.Debian.gz36 -rw-r--r--···0·root·········(0)·root·········(0)······301·2020-09-19·20:24:00.000000·./usr/share/doc/r-other-rajewsky-dropbead/changelog.Debian.gz
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Rscript --vanilla - {}
    
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48 .__NAMESPACE__.·(environment)·=·48 .__NAMESPACE__.·(environment)·=·
49 {49 {
50 ····"S3methods"·=·"structure(character(0),·.Dim·=·c(0L,·4L))"50 ····"S3methods"·=·"structure(character(0),·.Dim·=·c(0L,·4L))"
51 ····"dynlibs"·=·"NULL"51 ····"dynlibs"·=·"NULL"
52 ····"exports"·=·"<environment>"52 ····"exports"·=·"<environment>"
53 ····"imports"·=·"list(base·=·TRUE)"53 ····"imports"·=·"list(base·=·TRUE)"
54 ····"lazydata"·=·"<environment>"54 ····"lazydata"·=·"<environment>"
55 ····"path"·=·""/build/1st/r-other-rajewsky-dropbead-0.3.1+git20180221.d746c6f+ds/debian/r-other-rajewsky-dropbead/usr/lib/R/site-library/dropbead""55 ····"path"·=·""/build/2/r-other-rajewsky-dropbead-0.3.1+git20180221.d746c6f+ds/2nd/debian/r-other-rajewsky-dropbead/usr/lib/R/site-library/dropbead""
56 ····"spec"·=·"c(name·=·"dropbead",·version·=·"0.3.1")"56 ····"spec"·=·"c(name·=·"dropbead",·version·=·"0.3.1")"
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60 }60 }
  
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./usr/lib/R/site-library/dropbead/R/dropbead.rdx
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dropbead.rdx-content
    
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Offset 253, 173 lines modifiedOffset 253, 173 lines modified
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./usr/lib/R/site-library/dropbead/help/dropbead.rdb
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Rscript --vanilla - {}
    
Offset 12, 15 lines modifiedOffset 12, 15 lines modified
12 ········structure("\n",·Rd_tag·=·"TEXT"),·structure("\n",·Rd_tag·=·"TEXT"),·12 ········structure("\n",·Rd_tag·=·"TEXT"),·structure("\n",·Rd_tag·=·"TEXT"),·
13 ········structure(list(list(structure("gene.file",·Rd_tag·=·"TEXT")),·13 ········structure(list(list(structure("gene.file",·Rd_tag·=·"TEXT")),·
14 ············list(structure("The·excel·sheet·containing·the·cell·cycle·phase·specific·gene\n",·Rd_tag·=·"TEXT"),·14 ············list(structure("The·excel·sheet·containing·the·cell·cycle·phase·specific·gene\n",·Rd_tag·=·"TEXT"),·
15 ················structure("markers.·Taken·from·Macosko·et·al.·2015.",·Rd_tag·=·"TEXT"))),·Rd_tag·=·"\\item"),·15 ················structure("markers.·Taken·from·Macosko·et·al.·2015.",·Rd_tag·=·"TEXT"))),·Rd_tag·=·"\\item"),·
16 ········structure("\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\arguments"),·16 ········structure("\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\arguments"),·
17 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure("A·",·Rd_tag·=·"TEXT"),·17 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure("A·",·Rd_tag·=·"TEXT"),·
18 ········structure(list(structure("data.frame",·Rd_tag·=·"RCODE")),·Rd_tag·=·"\\code"),·18 ········structure(list(structure("data.frame",·Rd_tag·=·"RCODE")),·Rd_tag·=·"\\code"),·
19 ········structure("·with·cell·cycle·phase·scores·for·every·cell.\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\value")),·Rdfile·=·"/build/1st/r-other-rajewsky-dropbead-0.3.1+git20180221.d746c6f+ds/man/assignCellCyclePhases.Rd",·class·=·"Rd",·meta·=·list(19 ········structure("·with·cell·cycle·phase·scores·for·every·cell.\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\value")),·Rdfile·=·"/build/2/r-other-rajewsky-dropbead-0.3.1+git20180221.d746c6f+ds/2nd/man/assignCellCyclePhases.Rd",·class·=·"Rd",·meta·=·list(
20 ····docType·=·character(0)),·prepared·=·3L)20 ····docType·=·character(0)),·prepared·=·3L)
  
21 classifyCellsAndDoublets·(list)·=·structure(list(structure(list(structure("Classify·cells·to·species",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\title"),·21 classifyCellsAndDoublets·(list)·=·structure(list(structure(list(structure("Classify·cells·to·species",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\title"),·
22 ····structure(list(structure("classifyCellsAndDoublets",·Rd_tag·=·"VERB")),·Rd_tag·=·"\\name"),·22 ····structure(list(structure("classifyCellsAndDoublets",·Rd_tag·=·"VERB")),·Rd_tag·=·"\\name"),·
23 ····structure(list(structure("classifyCellsAndDoublets",·Rd_tag·=·"VERB")),·Rd_tag·=·"\\alias"),·23 ····structure(list(structure("classifyCellsAndDoublets",·Rd_tag·=·"VERB")),·Rd_tag·=·"\\alias"),·
24 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure("Classify·the·cells·to·species·according·to·the·transcripts·they·express.\n",·Rd_tag·=·"TEXT"),·24 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure("Classify·the·cells·to·species·according·to·the·transcripts·they·express.\n",·Rd_tag·=·"TEXT"),·
25 ········structure("The·differentiation·of·species·is·performed·internally·and·according·to\n",·Rd_tag·=·"TEXT"),·25 ········structure("The·differentiation·of·species·is·performed·internally·and·according·to\n",·Rd_tag·=·"TEXT"),·
Offset 41, 15 lines modifiedOffset 41, 15 lines modified
41 ········structure("\n",·Rd_tag·=·"TEXT"),·structure("\n",·Rd_tag·=·"TEXT"),·41 ········structure("\n",·Rd_tag·=·"TEXT"),·structure("\n",·Rd_tag·=·"TEXT"),·
42 ········structure(list(list(structure("min.trans",·Rd_tag·=·"TEXT")),·42 ········structure(list(list(structure("min.trans",·Rd_tag·=·"TEXT")),·
43 ············list(structure("The·minimum·number·of·transcripts·(UMIs)·required·for·a·cell.",·Rd_tag·=·"TEXT"))),·Rd_tag·=·"\\item"),·43 ············list(structure("The·minimum·number·of·transcripts·(UMIs)·required·for·a·cell.",·Rd_tag·=·"TEXT"))),·Rd_tag·=·"\\item"),·
44 ········structure("\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\arguments"),·44 ········structure("\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\arguments"),·
45 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure("A·",·Rd_tag·=·"TEXT"),·45 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure("A·",·Rd_tag·=·"TEXT"),·
46 ········structure(list(structure("data.frame",·Rd_tag·=·"RCODE")),·Rd_tag·=·"\\code"),·46 ········structure(list(structure("data.frame",·Rd_tag·=·"RCODE")),·Rd_tag·=·"\\code"),·
47 ········structure("·containing·the·cell·barcodes,·the·number·of·transcripts\n",·Rd_tag·=·"TEXT"),·47 ········structure("·containing·the·cell·barcodes,·the·number·of·transcripts\n",·Rd_tag·=·"TEXT"),·
48 ········structure("per·species·and·the·characterization·of·the·cell.\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\value")),·Rdfile·=·"/build/1st/r-other-rajewsky-dropbead-0.3.1+git20180221.d746c6f+ds/man/classifyCellsAndDoublets.Rd",·class·=·"Rd",·meta·=·list(48 ········structure("per·species·and·the·characterization·of·the·cell.\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\value")),·Rdfile·=·"/build/2/r-other-rajewsky-dropbead-0.3.1+git20180221.d746c6f+ds/2nd/man/classifyCellsAndDoublets.Rd",·class·=·"Rd",·meta·=·list(
49 ····docType·=·character(0)),·prepared·=·3L)49 ····docType·=·character(0)),·prepared·=·3L)
  
50 collapseCellsByBarcode·(list)·=·structure(list(structure(list(structure("Collapse·cells·by·barcodes·similarity",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\title"),·50 collapseCellsByBarcode·(list)·=·structure(list(structure(list(structure("Collapse·cells·by·barcodes·similarity",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\title"),·
51 ····structure(list(structure("collapseCellsByBarcode",·Rd_tag·=·"VERB")),·Rd_tag·=·"\\name"),·51 ····structure(list(structure("collapseCellsByBarcode",·Rd_tag·=·"VERB")),·Rd_tag·=·"\\name"),·
52 ····structure(list(structure("collapseCellsByBarcode",·Rd_tag·=·"VERB")),·Rd_tag·=·"\\alias"),·52 ····structure(list(structure("collapseCellsByBarcode",·Rd_tag·=·"VERB")),·Rd_tag·=·"\\alias"),·
53 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure("Collapse·cells·which·share·11·bases·in·their·barcodes·and·only·the·last\n",·Rd_tag·=·"TEXT"),·53 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure("Collapse·cells·which·share·11·bases·in·their·barcodes·and·only·the·last\n",·Rd_tag·=·"TEXT"),·
54 ········structure("one·is·different·(usually·being·N,·as·a·result·of·the·DetectBeadSynthesisErrors\n",·Rd_tag·=·"TEXT"),·54 ········structure("one·is·different·(usually·being·N,·as·a·result·of·the·DetectBeadSynthesisErrors\n",·Rd_tag·=·"TEXT"),·
Offset 59, 15 lines modifiedOffset 59, 15 lines modified
59 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure(list(59 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure(list(
60 ········list(structure("object",·Rd_tag·=·"TEXT")),·list(structure("A·",·Rd_tag·=·"TEXT"),·60 ········list(structure("object",·Rd_tag·=·"TEXT")),·list(structure("A·",·Rd_tag·=·"TEXT"),·
61 ············structure(list(structure("SingleSpeciesSample",·Rd_tag·=·"RCODE")),·Rd_tag·=·"\\code"),·61 ············structure(list(structure("SingleSpeciesSample",·Rd_tag·=·"RCODE")),·Rd_tag·=·"\\code"),·
62 ············structure("·object.",·Rd_tag·=·"TEXT"))),·Rd_tag·=·"\\item"),·62 ············structure("·object.",·Rd_tag·=·"TEXT"))),·Rd_tag·=·"\\item"),·
63 ········structure("\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\arguments"),·63 ········structure("\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\arguments"),·
64 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure("A·modified·",·Rd_tag·=·"TEXT"),·64 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure("A·modified·",·Rd_tag·=·"TEXT"),·
65 ········structure(list(structure("SingleSpeciesSample",·Rd_tag·=·"RCODE")),·Rd_tag·=·"\\code"),·65 ········structure(list(structure("SingleSpeciesSample",·Rd_tag·=·"RCODE")),·Rd_tag·=·"\\code"),·
66 ········structure("·object.\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\value")),·Rdfile·=·"/build/1st/r-other-rajewsky-dropbead-0.3.1+git20180221.d746c6f+ds/man/collapseCellsByBarcode.Rd",·class·=·"Rd",·meta·=·list(66 ········structure("·object.\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\value")),·Rdfile·=·"/build/2/r-other-rajewsky-dropbead-0.3.1+git20180221.d746c6f+ds/2nd/man/collapseCellsByBarcode.Rd",·class·=·"Rd",·meta·=·list(
67 ····docType·=·character(0)),·prepared·=·3L)67 ····docType·=·character(0)),·prepared·=·3L)
  
68 compareGeneExpressionLevels·(list)·=·structure(list(structure(list(structure("Compare·gene·expression·levels·between·two·single·species·samples",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\title"),·68 compareGeneExpressionLevels·(list)·=·structure(list(structure(list(structure("Compare·gene·expression·levels·between·two·single·species·samples",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\title"),·
69 ····structure(list(structure("compareGeneExpressionLevels",·Rd_tag·=·"VERB")),·Rd_tag·=·"\\name"),·69 ····structure(list(structure("compareGeneExpressionLevels",·Rd_tag·=·"VERB")),·Rd_tag·=·"\\name"),·
70 ····structure(list(structure("compareGeneExpressionLevels",·Rd_tag·=·"VERB")),·Rd_tag·=·"\\alias"),·70 ····structure(list(structure("compareGeneExpressionLevels",·Rd_tag·=·"VERB")),·Rd_tag·=·"\\alias"),·
71 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure("Computes·the·averaged·sums·of·the·gene·expression·levels·between·two\n",·Rd_tag·=·"TEXT"),·71 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure("Computes·the·averaged·sums·of·the·gene·expression·levels·between·two\n",·Rd_tag·=·"TEXT"),·
72 ········structure("samples,·as·well·as·their·correlation.\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\description"),·72 ········structure("samples,·as·well·as·their·correlation.\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\description"),·
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88 ········structure("\n",·Rd_tag·=·"TEXT"),·structure("\n",·Rd_tag·=·"TEXT"),·88 ········structure("\n",·Rd_tag·=·"TEXT"),·structure("\n",·Rd_tag·=·"TEXT"),·
89 ········structure(list(list(structure("name2",·Rd_tag·=·"TEXT")),·89 ········structure(list(list(structure("name2",·Rd_tag·=·"TEXT")),·
90 ············list(structure("The·name·of·the·second·sample.",·Rd_tag·=·"TEXT"))),·Rd_tag·=·"\\item"),·90 ············list(structure("The·name·of·the·second·sample.",·Rd_tag·=·"TEXT"))),·Rd_tag·=·"\\item"),·
91 ········structure("\n",·Rd_tag·=·"TEXT"),·structure("\n",·Rd_tag·=·"TEXT"),·91 ········structure("\n",·Rd_tag·=·"TEXT"),·structure("\n",·Rd_tag·=·"TEXT"),·
92 ········structure(list(list(structure("method",·Rd_tag·=·"TEXT")),·92 ········structure(list(list(structure("method",·Rd_tag·=·"TEXT")),·
93 ············list(structure("The·method·for·computing·the·correlation.",·Rd_tag·=·"TEXT"))),·Rd_tag·=·"\\item"),·93 ············list(structure("The·method·for·computing·the·correlation.",·Rd_tag·=·"TEXT"))),·Rd_tag·=·"\\item"),·
94 ········structure("\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\arguments"),·94 ········structure("\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\arguments"),·
95 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure("A·plot·comparing·the·gene·expression·levels.\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\value")),·Rdfile·=·"/build/1st/r-other-rajewsky-dropbead-0.3.1+git20180221.d746c6f+ds/man/compareGeneExpressionLevels.Rd",·class·=·"Rd",·meta·=·list(95 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure("A·plot·comparing·the·gene·expression·levels.\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\value")),·Rdfile·=·"/build/2/r-other-rajewsky-dropbead-0.3.1+git20180221.d746c6f+ds/2nd/man/compareGeneExpressionLevels.Rd",·class·=·"Rd",·meta·=·list(
96 ····docType·=·character(0)),·prepared·=·3L)96 ····docType·=·character(0)),·prepared·=·3L)
  
97 compareGeneExpressionLevels-MixedSpeciesSample-method·(list)·=·structure(list(structure(list(structure("Compare·gene·expression·levels·between·two·mixed·species·samples",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\title"),·97 compareGeneExpressionLevels-MixedSpeciesSample-method·(list)·=·structure(list(structure(list(structure("Compare·gene·expression·levels·between·two·mixed·species·samples",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\title"),·
98 ····structure(list(structure("compareGeneExpressionLevels,MixedSpeciesSample-method",·Rd_tag·=·"VERB")),·Rd_tag·=·"\\name"),·98 ····structure(list(structure("compareGeneExpressionLevels,MixedSpeciesSample-method",·Rd_tag·=·"VERB")),·Rd_tag·=·"\\name"),·
99 ····structure(list(structure("compareGeneExpressionLevels,MixedSpeciesSample-method",·Rd_tag·=·"VERB")),·Rd_tag·=·"\\alias"),·99 ····structure(list(structure("compareGeneExpressionLevels,MixedSpeciesSample-method",·Rd_tag·=·"VERB")),·Rd_tag·=·"\\alias"),·
100 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure("Compare·gene·expression·levels·between·two·mixed·species·samples\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\description"),·100 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure("Compare·gene·expression·levels·between·two·mixed·species·samples\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\description"),·
101 ····structure(list(structure("\n",·Rd_tag·=·"RCODE"),·structure(list(101 ····structure(list(structure("\n",·Rd_tag·=·"RCODE"),·structure(list(
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116 ········structure("\n",·Rd_tag·=·"TEXT"),·structure("\n",·Rd_tag·=·"TEXT"),·116 ········structure("\n",·Rd_tag·=·"TEXT"),·structure("\n",·Rd_tag·=·"TEXT"),·
117 ········structure(list(list(structure("threshold1",·Rd_tag·=·"TEXT")),·117 ········structure(list(list(structure("threshold1",·Rd_tag·=·"TEXT")),·
118 ············list(structure("The·threshold·for·the·firs·sample.",·Rd_tag·=·"TEXT"))),·Rd_tag·=·"\\item"),·118 ············list(structure("The·threshold·for·the·firs·sample.",·Rd_tag·=·"TEXT"))),·Rd_tag·=·"\\item"),·
119 ········structure("\n",·Rd_tag·=·"TEXT"),·structure("\n",·Rd_tag·=·"TEXT"),·119 ········structure("\n",·Rd_tag·=·"TEXT"),·structure("\n",·Rd_tag·=·"TEXT"),·
120 ········structure(list(list(structure("threshold2",·Rd_tag·=·"TEXT")),·120 ········structure(list(list(structure("threshold2",·Rd_tag·=·"TEXT")),·
121 ············list(structure("The·threshold·for·the·second·sample.",·Rd_tag·=·"TEXT"))),·Rd_tag·=·"\\item"),·121 ············list(structure("The·threshold·for·the·second·sample.",·Rd_tag·=·"TEXT"))),·Rd_tag·=·"\\item"),·
122 ········structure("\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\arguments"),·122 ········structure("\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\arguments"),·
123 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure("A·plot·comparing·the·gene·expression·levels·by·species.\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\value")),·Rdfile·=·"/build/1st/r-other-rajewsky-dropbead-0.3.1+git20180221.d746c6f+ds/man/compareGeneExpressionLevels-MixedSpeciesSample-method.Rd",·class·=·"Rd",·meta·=·list(123 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure("A·plot·comparing·the·gene·expression·levels·by·species.\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\value")),·Rdfile·=·"/build/2/r-other-rajewsky-dropbead-0.3.1+git20180221.d746c6f+ds/2nd/man/compareGeneExpressionLevels-MixedSpeciesSample-method.Rd",·class·=·"Rd",·meta·=·list(
124 ····docType·=·"methods"),·prepared·=·3L)124 ····docType·=·"methods"),·prepared·=·3L)
  
125 compareSingleCellsAgainstBulk·(list)·=·structure(list(structure(list(structure("Compare·gene·expression·between·single·cell·sample·and·bulk",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\title"),·125 compareSingleCellsAgainstBulk·(list)·=·structure(list(structure(list(structure("Compare·gene·expression·between·single·cell·sample·and·bulk",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\title"),·
126 ····structure(list(structure("compareSingleCellsAgainstBulk",·Rd_tag·=·"VERB")),·Rd_tag·=·"\\name"),·126 ····structure(list(structure("compareSingleCellsAgainstBulk",·Rd_tag·=·"VERB")),·Rd_tag·=·"\\name"),·
127 ····structure(list(structure("compareSingleCellsAgainstBulk",·Rd_tag·=·"VERB")),·Rd_tag·=·"\\alias"),·127 ····structure(list(structure("compareSingleCellsAgainstBulk",·Rd_tag·=·"VERB")),·Rd_tag·=·"\\alias"),·
128 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure("Compares·the·gene·expression·measurements·from·single·cell·data·against·bulk·data.\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\description"),·128 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure("Compares·the·gene·expression·measurements·from·single·cell·data·against·bulk·data.\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\description"),·
129 ····structure(list(structure("\n",·Rd_tag·=·"RCODE"),·structure("compareSingleCellsAgainstBulk(single.cells,·bulk.data,·method·=·\"pearson\",\n",·Rd_tag·=·"RCODE"),·129 ····structure(list(structure("\n",·Rd_tag·=·"RCODE"),·structure("compareSingleCellsAgainstBulk(single.cells,·bulk.data,·method·=·\"pearson\",\n",·Rd_tag·=·"RCODE"),·
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148 ············list(structure("The·color·of·the·scatterplot·points.",·Rd_tag·=·"TEXT"))),·Rd_tag·=·"\\item"),·148 ············list(structure("The·color·of·the·scatterplot·points.",·Rd_tag·=·"TEXT"))),·Rd_tag·=·"\\item"),·
149 ········structure("\n",·Rd_tag·=·"TEXT"),·structure("\n",·Rd_tag·=·"TEXT"),·149 ········structure("\n",·Rd_tag·=·"TEXT"),·structure("\n",·Rd_tag·=·"TEXT"),·
150 ········structure(list(list(structure("log.space",·Rd_tag·=·"TEXT")),·150 ········structure(list(list(structure("log.space",·Rd_tag·=·"TEXT")),·
151 ············list(structure("If·True·(default·value)·then·the·average·of·single·cells·data·is\n",·Rd_tag·=·"TEXT"),·151 ············list(structure("If·True·(default·value)·then·the·average·of·single·cells·data·is\n",·Rd_tag·=·"TEXT"),·
152 ················structure("performed·in·log·space.",·Rd_tag·=·"TEXT"))),·Rd_tag·=·"\\item"),·152 ················structure("performed·in·log·space.",·Rd_tag·=·"TEXT"))),·Rd_tag·=·"\\item"),·
153 ········structure("\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\arguments"),·153 ········structure("\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\arguments"),·
154 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure("A·scatterplot·comparing·the·gene·expression·levels·and·with·the·correlation\n",·Rd_tag·=·"TEXT"),·154 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure("A·scatterplot·comparing·the·gene·expression·levels·and·with·the·correlation\n",·Rd_tag·=·"TEXT"),·
155 ········structure("among·the·samples·computed.\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\value")),·Rdfile·=·"/build/1st/r-other-rajewsky-dropbead-0.3.1+git20180221.d746c6f+ds/man/compareSingleCellsAgainstBulk.Rd",·class·=·"Rd",·meta·=·list(155 ········structure("among·the·samples·computed.\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\value")),·Rdfile·=·"/build/2/r-other-rajewsky-dropbead-0.3.1+git20180221.d746c6f+ds/2nd/man/compareSingleCellsAgainstBulk.Rd",·class·=·"Rd",·meta·=·list(
156 ····docType·=·character(0)),·prepared·=·3L)156 ····docType·=·character(0)),·prepared·=·3L)
  
157 computeCorrelationSingleCellsVersusBulk·(list)·=·structure(list(structure(list(structure("Compare·single·cell·sample·against·bulk·data",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\title"),·157 computeCorrelationSingleCellsVersusBulk·(list)·=·structure(list(structure(list(structure("Compare·single·cell·sample·against·bulk·data",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\title"),·
158 ····structure(list(structure("computeCorrelationSingleCellsVersusBulk",·Rd_tag·=·"VERB")),·Rd_tag·=·"\\name"),·158 ····structure(list(structure("computeCorrelationSingleCellsVersusBulk",·Rd_tag·=·"VERB")),·Rd_tag·=·"\\name"),·
159 ····structure(list(structure("computeCorrelationSingleCellsVersusBulk",·Rd_tag·=·"VERB")),·Rd_tag·=·"\\alias"),·159 ····structure(list(structure("computeCorrelationSingleCellsVersusBulk",·Rd_tag·=·"VERB")),·Rd_tag·=·"\\alias"),·
160 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure("Computes·correlation·of·gene·expression·measurements·between·a·single·cell\n",·Rd_tag·=·"TEXT"),·160 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure("Computes·correlation·of·gene·expression·measurements·between·a·single·cell\n",·Rd_tag·=·"TEXT"),·
161 ········structure("sample·and·bulk·data.\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\description"),·161 ········structure("sample·and·bulk·data.\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\description"),·
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175 ················structure("rownames·and·RPKM·values·as·the·first·column.",·Rd_tag·=·"TEXT"))),·Rd_tag·=·"\\item"),·175 ················structure("rownames·and·RPKM·values·as·the·first·column.",·Rd_tag·=·"TEXT"))),·Rd_tag·=·"\\item"),·
176 ········structure("\n",·Rd_tag·=·"TEXT"),·structure("\n",·Rd_tag·=·"TEXT"),·176 ········structure("\n",·Rd_tag·=·"TEXT"),·structure("\n",·Rd_tag·=·"TEXT"),·
177 ········structure(list(list(structure("method",·Rd_tag·=·"TEXT")),·177 ········structure(list(list(structure("method",·Rd_tag·=·"TEXT")),·
178 ············list(structure("The·method·to·compute·the·correlation·(default·is·Pearson).",·Rd_tag·=·"TEXT"))),·Rd_tag·=·"\\item"),·178 ············list(structure("The·method·to·compute·the·correlation·(default·is·Pearson).",·Rd_tag·=·"TEXT"))),·Rd_tag·=·"\\item"),·
179 ········structure("\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\arguments"),·179 ········structure("\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\arguments"),·
180 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure("A·list·of·length·2.·First·item·is·the·correlation·and·second·is·the\n",·Rd_tag·=·"TEXT"),·180 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure("A·list·of·length·2.·First·item·is·the·correlation·and·second·is·the\n",·Rd_tag·=·"TEXT"),·
181 ········structure(list(structure("data.frame",·Rd_tag·=·"RCODE")),·Rd_tag·=·"\\code"),·181 ········structure(list(structure("data.frame",·Rd_tag·=·"RCODE")),·Rd_tag·=·"\\code"),·
182 ········structure(".\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\value")),·Rdfile·=·"/build/1st/r-other-rajewsky-dropbead-0.3.1+git20180221.d746c6f+ds/man/computeCorrelationSingleCellsVersusBulk.Rd",·class·=·"Rd",·meta·=·list(182 ········structure(".\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\value")),·Rdfile·=·"/build/2/r-other-rajewsky-dropbead-0.3.1+git20180221.d746c6f+ds/2nd/man/computeCorrelationSingleCellsVersusBulk.Rd",·class·=·"Rd",·meta·=·list(
183 ····docType·=·character(0)),·prepared·=·3L)183 ····docType·=·character(0)),·prepared·=·3L)
  
184 computeGenesPerCell·(list)·=·structure(list(structure(list(structure("Compute·genes·per·cell",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\title"),·184 computeGenesPerCell·(list)·=·structure(list(structure(list(structure("Compute·genes·per·cell",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\title"),·
185 ····structure(list(structure("computeGenesPerCell",·Rd_tag·=·"VERB")),·Rd_tag·=·"\\name"),·185 ····structure(list(structure("computeGenesPerCell",·Rd_tag·=·"VERB")),·Rd_tag·=·"\\name"),·
186 ····structure(list(structure("computeGenesPerCell",·Rd_tag·=·"VERB")),·Rd_tag·=·"\\alias"),·186 ····structure(list(structure("computeGenesPerCell",·Rd_tag·=·"VERB")),·Rd_tag·=·"\\alias"),·
187 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure("Computes·the·number·of·genes·that·a·cell·expresses.\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\description"),·187 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure("Computes·the·number·of·genes·that·a·cell·expresses.\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\description"),·
188 ····structure(list(structure("\n",·Rd_tag·=·"RCODE"),·structure("computeGenesPerCell(object,·min.umis·=·1,·...)\n",·Rd_tag·=·"RCODE")),·Rd_tag·=·"\\usage"),·188 ····structure(list(structure("\n",·Rd_tag·=·"RCODE"),·structure("computeGenesPerCell(object,·min.umis·=·1,·...)\n",·Rd_tag·=·"RCODE")),·Rd_tag·=·"\\usage"),·
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193 ············structure(".",·Rd_tag·=·"TEXT"))),·Rd_tag·=·"\\item"),·193 ············structure(".",·Rd_tag·=·"TEXT"))),·Rd_tag·=·"\\item"),·
194 ········structure("\n",·Rd_tag·=·"TEXT"),·structure("\n",·Rd_tag·=·"TEXT"),·194 ········structure("\n",·Rd_tag·=·"TEXT"),·structure("\n",·Rd_tag·=·"TEXT"),·
195 ········structure(list(list(structure("min.umis",·Rd_tag·=·"TEXT")),·195 ········structure(list(list(structure("min.umis",·Rd_tag·=·"TEXT")),·
196 ············list(structure("The·minimum·number·of·UMIs·to·consider·the·gene·as·expressed·(default·is·1).",·Rd_tag·=·"TEXT"))),·Rd_tag·=·"\\item"),·196 ············list(structure("The·minimum·number·of·UMIs·to·consider·the·gene·as·expressed·(default·is·1).",·Rd_tag·=·"TEXT"))),·Rd_tag·=·"\\item"),·
197 ········structure("\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\arguments"),·197 ········structure("\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\arguments"),·
198 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure("A·",·Rd_tag·=·"TEXT"),·198 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure("A·",·Rd_tag·=·"TEXT"),·
199 ········structure(list(structure("data.frame",·Rd_tag·=·"RCODE")),·Rd_tag·=·"\\code"),·199 ········structure(list(structure("data.frame",·Rd_tag·=·"RCODE")),·Rd_tag·=·"\\code"),·
200 ········structure("·with·cells,·gene·counts·and·species.\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\value")),·Rdfile·=·"/build/1st/r-other-rajewsky-dropbead-0.3.1+git20180221.d746c6f+ds/man/computeGenesPerCell.Rd",·class·=·"Rd",·meta·=·list(200 ········structure("·with·cells,·gene·counts·and·species.\n",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\value")),·Rdfile·=·"/build/2/r-other-rajewsky-dropbead-0.3.1+git20180221.d746c6f+ds/2nd/man/computeGenesPerCell.Rd",·class·=·"Rd",·meta·=·list(
201 ····docType·=·character(0)),·prepared·=·3L)201 ····docType·=·character(0)),·prepared·=·3L)
  
202 computeMitochondrialPercentage·(list)·=·structure(list(structure(list(structure("Computes·mitochondrial·percentage",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\title"),·202 computeMitochondrialPercentage·(list)·=·structure(list(structure(list(structure("Computes·mitochondrial·percentage",·Rd_tag·=·"TEXT")),·Rd_tag·=·"\\title"),·
203 ····structure(list(structure("computeMitochondrialPercentage",·Rd_tag·=·"VERB")),·Rd_tag·=·"\\name"),·203 ····structure(list(structure("computeMitochondrialPercentage",·Rd_tag·=·"VERB")),·Rd_tag·=·"\\name"),·
204 ····structure(list(structure("computeMitochondrialPercentage",·Rd_tag·=·"VERB")),·Rd_tag·=·"\\alias"),·204 ····structure(list(structure("computeMitochondrialPercentage",·Rd_tag·=·"VERB")),·Rd_tag·=·"\\alias"),·
205 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure("Computes·the·percentageof·UMIs·coming·from·mitochondrial·encoded·RNA.·For·human,\n",·Rd_tag·=·"TEXT"),·205 ····structure(list(structure("\n",·Rd_tag·=·"TEXT"),·structure("Computes·the·percentageof·UMIs·coming·from·mitochondrial·encoded·RNA.·For·human,\n",·Rd_tag·=·"TEXT"),·
206 ········structure("mouse·and·melanogaster·samples·the·mitochondrial·prefix·is·hard-coded·as·",·Rd_tag·=·"TEXT"),·206 ········structure("mouse·and·melanogaster·samples·the·mitochondrial·prefix·is·hard-coded·as·",·Rd_tag·=·"TEXT"),·
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paths.rds-content
    
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