r-bioc-shortread 1.28.0-1 in ubuntu - xenial / universe

About

This package is 4.0 MB. It is available at http://archive.ubuntu.com/ubuntu/pool/universe/r/r-bioc-shortread/r-bioc-shortread_1.28.0-1_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 (>= 3.2.2-1), r-api-3, libc6 (>= 2.14), libgcc1 (>= 1:4.1.1), libgomp1 (>= 4.9), libstdc++6 (>= 5.2), zlib1g (>= 1:1.1.4), r-cran-latticeextra, r-bioc-biobase (>= 2.26.0), r-bioc-genomicalignments (>= 1.6.0), r-cran-hwriter.

This package does not recommend any other package.

This package does not suggest any other package.

This package does not conflict with any other package.

Package Contents

This package is indexed.

r-bioc-shortread 1.28.0-1 is in ubuntu - xenial / 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 129.3 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 20.2 KB
/usr/lib/R/site-library/ShortRead/help/paths.rds application/gzip root:root 0o644 645 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 127.2 KB
/usr/lib/R/site-library/ShortRead/Meta/ root:root 0o755
/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 262 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 11.7 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 784.1 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 3.1 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 427 bytes
/usr/share/doc/r-bioc-shortread/copyright text/plain root:root 0o644 6.2 KB
/usr/share/doc/r-bioc-shortread/NEWS.gz application/gzip root:root 0o644 4.3 KB
/usr/share/doc/r-bioc-shortread/README.test text/plain root:root 0o644 373 bytes
/usr/share/lintian/ root:root 0o755
/usr/share/lintian/overrides/ root:root 0o755
/usr/share/lintian/overrides/r-bioc-shortread text/plain root:root 0o644 317 bytes

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