r-bioc-shortread 1.36.0-1 in ubuntu - bionic / universe

About

This package is 4.1 MB. It is available at http://archive.ubuntu.com/ubuntu/pool/universe/r/r-bioc-shortread/r-bioc-shortread_1.36.0-1_amd64.deb .

View its full control file here: debian/control.

Description

GNU R classes and methods for high-throughput short-read sequencing data

Relations

This package depends on: r-base-core (>= 3.4.2-1ubuntu4), r-api-3.4, r-bioc-biocgenerics (>= 0.23.3), r-bioc-biocparallel, r-bioc-biostrings (>= 2.37.1), r-bioc-rsamtools (>= 1.21.4), r-bioc-genomicalignments (>= 1.5.4), r-bioc-biobase, r-bioc-s4vectors (>= 0.13.8), r-bioc-iranges (>= 2.3.7), r-bioc-genomeinfodb (>= 1.1.19), r-bioc-genomicranges (>= 1.21.6), r-cran-hwriter, r-cran-lattice, r-cran-latticeextra, libc6 (>= 2.14), libgcc1 (>= 1:3.0), libstdc++6 (>= 5.2), zlib1g (>= 1:1.1.4).

This package does not recommend any other package.

This package does not conflict with any other package.

Package Contents

This package is indexed.

r-bioc-shortread 1.36.0-1 is in ubuntu - bionic / universe. This package's architecture is: amd64.

File Mime Type Owner Mode Size
/usr/ root:root 0o755
/usr/lib/ root:root 0o755
/usr/lib/R/ root:root 0o755
/usr/lib/R/site-library/ root:root 0o755
/usr/lib/R/site-library/ShortRead/ root:root 0o755
/usr/lib/R/site-library/ShortRead/CITATION text/plain root:root 0o644 1.1 KB
/usr/lib/R/site-library/ShortRead/DESCRIPTION text/plain root:root 0o644 1.3 KB
/usr/lib/R/site-library/ShortRead/doc/ root:root 0o755
/usr/lib/R/site-library/ShortRead/doc/index.html text/html root:root 0o644 1.3 KB
/usr/lib/R/site-library/ShortRead/doc/Overview.pdf application/pdf root:root 0o644 170.7 KB
/usr/lib/R/site-library/ShortRead/doc/Overview.R text/plain root:root 0o644 5.8 KB
/usr/lib/R/site-library/ShortRead/doc/Overview.Rnw text/x-tex root:root 0o644 15.3 KB
/usr/lib/R/site-library/ShortRead/extdata/ root:root 0o755
/usr/lib/R/site-library/ShortRead/extdata/bowtie/ root:root 0o755
/usr/lib/R/site-library/ShortRead/extdata/bowtie/s_1_aligned_bowtie.txt text/plain root:root 0o644 114.3 KB
/usr/lib/R/site-library/ShortRead/extdata/Data/ root:root 0o755
/usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/ root:root 0o755
/usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/Bustard/ root:root 0o755
/usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/Bustard/GERALD/ root:root 0o755
/usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/Bustard/GERALD/s_1_sequence.txt text/plain root:root 0o644 31.0 KB
/usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/Bustard/GERALD/s_2_export.txt text/plain root:root 0o644 118.5 KB
/usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/Bustard/GERALD/s_5_0001_realign.txt text/plain root:root 0o644 88.8 KB
/usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/Bustard/s_1_0001_prb.txt text/plain root:root 0o644 180.0 KB
/usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/Bustard/s_1_0001_seq.txt text/plain root:root 0o644 12.2 KB
/usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/Bustard/s_1_1_0001_qseq.txt text/plain root:root 0o644 21.0 KB
/usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/s_1_0001_int.txt text/plain root:root 0o644 255.1 KB
/usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/s_1_0001_nse.txt text/plain root:root 0o644 254.9 KB
/usr/lib/R/site-library/ShortRead/extdata/E-MTAB-1147/ root:root 0o755
/usr/lib/R/site-library/ShortRead/extdata/E-MTAB-1147/ERR127302_1_subset.fastq.gz application/gzip root:root 0o644 1.3 MB
/usr/lib/R/site-library/ShortRead/extdata/E-MTAB-1147/ERR127302_2_subset.fastq.gz application/gzip root:root 0o644 1.3 MB
/usr/lib/R/site-library/ShortRead/extdata/maq/ root:root 0o755
/usr/lib/R/site-library/ShortRead/extdata/maq/out.aln.1.txt text/plain root:root 0o644 128.4 KB
/usr/lib/R/site-library/ShortRead/extdata/maq/out.aln.2.txt text/plain root:root 0o644 130.3 KB
/usr/lib/R/site-library/ShortRead/help/ root:root 0o755
/usr/lib/R/site-library/ShortRead/help/aliases.rds application/gzip root:root 0o644 4.1 KB
/usr/lib/R/site-library/ShortRead/help/AnIndex text/plain root:root 0o644 20.3 KB
/usr/lib/R/site-library/ShortRead/help/paths.rds application/gzip root:root 0o644 644 bytes
/usr/lib/R/site-library/ShortRead/help/ShortRead.rdb application/octet-stream root:root 0o644 295.4 KB
/usr/lib/R/site-library/ShortRead/help/ShortRead.rdx application/gzip root:root 0o644 1.5 KB
/usr/lib/R/site-library/ShortRead/html/ root:root 0o755
/usr/lib/R/site-library/ShortRead/html/00Index.html text/html root:root 0o644 64.4 KB
/usr/lib/R/site-library/ShortRead/html/R.css text/plain root:root 0o644 1.3 KB
/usr/lib/R/site-library/ShortRead/INDEX text/plain root:root 0o644 5.8 KB
/usr/lib/R/site-library/ShortRead/libs/ root:root 0o755
/usr/lib/R/site-library/ShortRead/libs/ShortRead.so application/x-sharedlib root:root 0o644 127.1 KB
/usr/lib/R/site-library/ShortRead/Meta/ root:root 0o755
/usr/lib/R/site-library/ShortRead/Meta/features.rds application/gzip root:root 0o644 112 bytes
/usr/lib/R/site-library/ShortRead/Meta/hsearch.rds application/gzip root:root 0o644 5.6 KB
/usr/lib/R/site-library/ShortRead/Meta/links.rds application/gzip root:root 0o644 4.1 KB
/usr/lib/R/site-library/ShortRead/Meta/nsInfo.rds application/gzip root:root 0o644 848 bytes
/usr/lib/R/site-library/ShortRead/Meta/package.rds application/gzip root:root 0o644 1.3 KB
/usr/lib/R/site-library/ShortRead/Meta/Rd.rds application/gzip root:root 0o644 5.5 KB
/usr/lib/R/site-library/ShortRead/Meta/vignette.rds application/gzip root:root 0o644 261 bytes
/usr/lib/R/site-library/ShortRead/NAMESPACE text/plain root:root 0o644 1.1 KB
/usr/lib/R/site-library/ShortRead/NEWS text/plain root:root 0o644 11.9 KB
/usr/lib/R/site-library/ShortRead/R/ root:root 0o755
/usr/lib/R/site-library/ShortRead/R/ShortRead text/plain root:root 0o644 1.0 KB
/usr/lib/R/site-library/ShortRead/R/ShortRead.rdb video/mpeg root:root 0o644 913.5 KB
/usr/lib/R/site-library/ShortRead/R/ShortRead.rdx application/gzip root:root 0o644 11.6 KB
/usr/lib/R/site-library/ShortRead/script/ root:root 0o755
/usr/lib/R/site-library/ShortRead/script/qa-test.R text/plain root:root 0o644 308 bytes
/usr/lib/R/site-library/ShortRead/template/ root:root 0o755
/usr/lib/R/site-library/ShortRead/template/0000-Header.html text/html root:root 0o644 671 bytes
/usr/lib/R/site-library/ShortRead/template/1000-Overview.html text/plain root:root 0o644 578 bytes
/usr/lib/R/site-library/ShortRead/template/1100-Overview-SolexaRealign.html text/plain root:root 0o644 140 bytes
/usr/lib/R/site-library/ShortRead/template/2000-RunSummary.html text/plain root:root 0o644 1.1 KB
/usr/lib/R/site-library/ShortRead/template/3000-ReadDistribution.html text/plain root:root 0o644 2.0 KB
/usr/lib/R/site-library/ShortRead/template/4000-CycleSpecific.html text/plain root:root 0o644 1.2 KB
/usr/lib/R/site-library/ShortRead/template/5000-PerTile.html text/plain root:root 0o644 2.4 KB
/usr/lib/R/site-library/ShortRead/template/6000-Alignment.html text/plain root:root 0o644 342 bytes
/usr/lib/R/site-library/ShortRead/template/7000-MultipleAlignment.html text/plain root:root 0o644 257 bytes
/usr/lib/R/site-library/ShortRead/template/8000-DepthOfCoverage.html text/plain root:root 0o644 249 bytes
/usr/lib/R/site-library/ShortRead/template/9000-AdapterContamination.html text/plain root:root 0o644 520 bytes
/usr/lib/R/site-library/ShortRead/template/9999-Footer.html text/plain root:root 0o644 108 bytes
/usr/lib/R/site-library/ShortRead/template/image/ root:root 0o755
/usr/lib/R/site-library/ShortRead/template/image/bioclogo-small.gif image/gif root:root 0o644 7.5 KB
/usr/lib/R/site-library/ShortRead/template/QAAdapterContamination.html text/plain root:root 0o644 402 bytes
/usr/lib/R/site-library/ShortRead/template/QA.css text/plain root:root 0o644 575 bytes
/usr/lib/R/site-library/ShortRead/template/QAFiltered.html text/plain root:root 0o644 146 bytes
/usr/lib/R/site-library/ShortRead/template/QAFlagged.html text/plain root:root 0o644 90 bytes
/usr/lib/R/site-library/ShortRead/template/QAFooter.html text/plain root:root 0o644 108 bytes
/usr/lib/R/site-library/ShortRead/template/QAFrequentSequence.html text/plain root:root 0o644 155 bytes
/usr/lib/R/site-library/ShortRead/template/QAHeader.html text/html root:root 0o644 670 bytes
/usr/lib/R/site-library/ShortRead/template/QANucleotideByCycle.html text/plain root:root 0o644 336 bytes
/usr/lib/R/site-library/ShortRead/template/QANucleotideUse.html text/plain root:root 0o644 207 bytes
/usr/lib/R/site-library/ShortRead/template/QAQualityByCycle.html text/plain root:root 0o644 654 bytes
/usr/lib/R/site-library/ShortRead/template/QAQualityUse.html text/plain root:root 0o644 216 bytes
/usr/lib/R/site-library/ShortRead/template/QAReadQuality.html text/plain root:root 0o644 279 bytes
/usr/lib/R/site-library/ShortRead/template/QASequenceUse.html text/plain root:root 0o644 1.2 KB
/usr/lib/R/site-library/ShortRead/template/qa_solexa.Rnw text/x-tex root:root 0o644 6.9 KB
/usr/lib/R/site-library/ShortRead/template/QASources.html text/plain root:root 0o644 202 bytes
/usr/lib/R/site-library/ShortRead/unitTests/ root:root 0o755
/usr/lib/R/site-library/ShortRead/unitTests/cases/ root:root 0o755
/usr/lib/R/site-library/ShortRead/unitTests/cases/PE_export.txt.gz application/gzip root:root 0o644 18.7 KB
/usr/lib/R/site-library/ShortRead/unitTests/cases/s_1_0001_int_head.txt.p text/plain root:root 0o644 475 bytes
/usr/lib/R/site-library/ShortRead/unitTests/cases/s_1_0001_nse_head.txt.p text/plain root:root 0o644 475 bytes
/usr/lib/R/site-library/ShortRead/unitTests/cases/s_1_0001_pos_head.txt text/plain root:root 0o644 80 bytes
/usr/lib/R/site-library/ShortRead/unitTests/cases/s_1_results_head.txt text/plain root:root 0o644 77.4 KB
/usr/lib/R/site-library/ShortRead/unitTests/cases/s_1_sequence.8_lines_illegal_nucleotide.txt text/plain root:root 0o644 250 bytes
/usr/lib/R/site-library/ShortRead/unitTests/cases/s_1_sequence.8_lines_read_mismatch.txt text/plain root:root 0o644 240 bytes
/usr/lib/R/site-library/ShortRead/unitTests/cases/s_1_sequence.8_lines_read_quality_mismatch.txt text/plain root:root 0o644 242 bytes
/usr/lib/R/site-library/ShortRead/unitTests/cases/s_1_sequence.9_lines.txt text/plain root:root 0o644 275 bytes
/usr/lib/R/site-library/ShortRead/unitTests/cases/s_1_sequence.txt text/plain root:root 0o644 31.0 KB
/usr/lib/R/site-library/ShortRead/unitTests/cases/s_2_0001_realign_3col_head.txt text/plain root:root 0o644 1.4 KB
/usr/lib/R/site-library/ShortRead/unitTests/cases/s_2_0001_realign_head.txt text/plain root:root 0o644 6.5 KB
/usr/lib/R/site-library/ShortRead/unitTests/cases/s_2_export_run_as_factor.txt text/plain root:root 0o644 1.2 KB
/usr/lib/R/site-library/ShortRead/unitTests/cases/s_2_export_toIUPAC.txt text/plain root:root 0o644 945 bytes
/usr/lib/R/site-library/ShortRead/unitTests/cases/sanger.fastq text/plain root:root 0o644 150 bytes
/usr/lib/R/site-library/ShortRead/unitTests/cases/soap.txt text/plain root:root 0o644 2.5 KB
/usr/lib/R/site-library/ShortRead/unitTests/cases/solexa.fastq text/plain root:root 0o644 174 bytes
/usr/lib/R/site-library/ShortRead/unitTests/test_AlignedRead.R text/plain root:root 0o644 11.2 KB
/usr/lib/R/site-library/ShortRead/unitTests/test_AllClasses.R text/plain root:root 0o644 521 bytes
/usr/lib/R/site-library/ShortRead/unitTests/test_append.R text/plain root:root 0o644 1.6 KB
/usr/lib/R/site-library/ShortRead/unitTests/test_coverage.R text/plain root:root 0o644 2.1 KB
/usr/lib/R/site-library/ShortRead/unitTests/test_FastqFile.R text/plain root:root 0o644 758 bytes
/usr/lib/R/site-library/ShortRead/unitTests/test_filterFastq.R text/plain root:root 0o644 1.1 KB
/usr/lib/R/site-library/ShortRead/unitTests/test_functions.R text/plain root:root 0o644 4.8 KB
/usr/lib/R/site-library/ShortRead/unitTests/test_Intensity.R text/plain root:root 0o644 1.2 KB
/usr/lib/R/site-library/ShortRead/unitTests/test_qa.R text/plain root:root 0o644 1.2 KB
/usr/lib/R/site-library/ShortRead/unitTests/test_readPrb.R text/plain root:root 0o644 1.1 KB
/usr/lib/R/site-library/ShortRead/unitTests/test_readQseq.R text/plain root:root 0o644 1.3 KB
/usr/lib/R/site-library/ShortRead/unitTests/test_readXStringColumns.R text/plain root:root 0o644 2.7 KB
/usr/lib/R/site-library/ShortRead/unitTests/test_renew.R text/plain root:root 0o644 1.0 KB
/usr/lib/R/site-library/ShortRead/unitTests/test_ShortReadQ.R text/plain root:root 0o644 8.5 KB
/usr/lib/R/site-library/ShortRead/unitTests/test_ShortRead.R text/plain root:root 0o644 1.1 KB
/usr/lib/R/site-library/ShortRead/unitTests/test_SolexaIntensity.R text/plain root:root 0o644 3.2 KB
/usr/lib/R/site-library/ShortRead/unitTests/test_SRError.R text/plain root:root 0o644 1.6 KB
/usr/lib/R/site-library/ShortRead/unitTests/test_SRFilter.R text/plain root:root 0o644 7.2 KB
/usr/lib/R/site-library/ShortRead/unitTests/test_SRFilterResult.R text/plain root:root 0o644 3.1 KB
/usr/lib/R/site-library/ShortRead/unitTests/test_SRList.R text/plain root:root 0o644 568 bytes
/usr/lib/R/site-library/ShortRead/unitTests/test_SRVector.R text/plain root:root 0o644 459 bytes
/usr/lib/R/site-library/ShortRead/unitTests/test_trimEnds.R text/plain root:root 0o644 1.7 KB
/usr/lib/R/site-library/ShortRead/unitTests/test_trimTails.R text/plain root:root 0o644 2.5 KB
/usr/lib/R/site-library/ShortRead/unitTests/test_writeFastq.R text/plain root:root 0o644 1.2 KB
/usr/share/ root:root 0o755
/usr/share/doc/ root:root 0o755
/usr/share/doc/r-bioc-shortread/ root:root 0o755
/usr/share/doc/r-bioc-shortread/changelog.Debian.gz application/gzip root:root 0o644 700 bytes
/usr/share/doc/r-bioc-shortread/copyright text/plain root:root 0o644 6.2 KB
/usr/share/doc/r-bioc-shortread/README.test text/plain root:root 0o644 373 bytes

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