bcbio (1.2.9-4)

Details

Core information at a glance

Distribution: ubuntu
Origin: ubuntu-stonking
Repository: https://nl.archive.ubuntu.com/ubuntu
Codename: stonking
Component: multiverse
Source: none
Architecture: amd64v3
Section: multiverse/science
Priority: optional
Maintainer: Ubuntu Developers <[email protected]>

Size & integrity

Byte sizes and integrity verification

Installed size: 247 B
Size expected: 40.9 kB
Size actual: 40.9 kB
Size match

Dependencies

Required package dependencies

python3:any
python3-bcbio

Suggested packages

Recommended additional packages

toil
cwltool
kallisto
qualimap
libglu1-mesa
tophat2
tophat-recondition
r-bioc-summarizedexperiment
r-cran-tidyverse
r-other-wasabi

Description

toolkit for analysing high-throughput sequencing data

Homepage Download .deb

Checksums

Hash values and integrity verification status

Type	Expected	Actual
MD5	3ae48958…b09f020c	3ae48958…b09f020c
SHA-1	f0da05d5…2b2bba6b	f0da05d5…2b2bba6b
SHA-256	fc0d6004…f7c31949	fc0d6004…f7c31949
SHA-512	96cd4f44…7181b682	96cd4f44…7181b682

Files and directories included

.
usr
usr/bin
usr/bin/bcbio_fastq_umi_prep.py
usr/bin/bcbio_nextgen.py
usr/bin/bcbio_prepare_samples.py
usr/bin/bcbio_setup_genome.py
usr/bin/cwltool2wdl.py
usr/share
usr/share/bcbio
usr/share/bcbio/config
usr/share/bcbio/config/bcbio_sample.yaml
usr/share/bcbio/config/bcbio_system.yaml
usr/share/bcbio/config/examples
usr/share/bcbio/config/examples/HCC2218-sv-getdata.sh
usr/share/bcbio/config/examples/HCC2218-sv.yaml
usr/share/bcbio/config/examples/NA12878-ensemble.yaml
usr/share/bcbio/config/examples/NA12878-exome-methodcmp-getdata.sh
usr/share/bcbio/config/examples/NA12878-exome-methodcmp.yaml
usr/share/bcbio/config/examples/NA12878-hg38-validate-getdata.sh
usr/share/bcbio/config/examples/NA12878-hg38-validate.yaml
usr/share/bcbio/config/examples/NA12878-illumina.yaml
usr/share/bcbio/config/examples/NA12878-sv-getdata.sh
usr/share/bcbio/config/examples/NA12878-sv.yaml
usr/share/bcbio/config/examples/NA12878-trio-wgs-joint.yaml
usr/share/bcbio/config/examples/NA12878-trio-wgs-validate-getdata.sh
usr/share/bcbio/config/examples/NA12878-trio-wgs-validate.yaml
usr/share/bcbio/config/examples/NA12878.validate.sh
usr/share/bcbio/config/examples/NA24385-10x-getdata.sh
usr/share/bcbio/config/examples/NA24385-10x.yaml
usr/share/bcbio/config/examples/archived
usr/share/bcbio/config/examples/archived/NA12878-trio-sv-getdata.sh
usr/share/bcbio/config/examples/archived/NA12878-trio-sv.yaml
usr/share/bcbio/config/examples/cancer-dream-syn3-getdata.sh
usr/share/bcbio/config/examples/cancer-dream-syn3.yaml
usr/share/bcbio/config/examples/cancer-dream-syn4.yaml
usr/share/bcbio/config/examples/cancer-giab-na12878-na24385-getdata.sh
usr/share/bcbio/config/examples/cancer-giab-na12878-na24385.yaml
usr/share/bcbio/config/examples/chip_seq.yaml
usr/share/bcbio/config/examples/giab-validate-setup.sh
usr/share/bcbio/config/examples/giab-validate.yaml
usr/share/bcbio/config/examples/mitochondrial_variants_amplicons.yaml
usr/share/bcbio/config/examples/rnaseq-seqc-getdata.sh
usr/share/bcbio/config/examples/rnaseq-seqc.yaml
usr/share/bcbio/config/examples/rnaseq.variant_calling.yaml
usr/share/bcbio/config/examples/seqc.csv
usr/share/bcbio/config/examples/somatic_tumor_normal_gatkcnv.yaml
usr/share/bcbio/config/galaxy
usr/share/bcbio/config/galaxy/bcbio
usr/share/bcbio/config/galaxy/bcbio/variant.xml
usr/share/bcbio/config/genomes
usr/share/bcbio/config/genomes/BDGP6-resources.yaml
usr/share/bcbio/config/genomes/GRCh37-resources.yaml
usr/share/bcbio/config/genomes/GRCz10-resources.yaml
usr/share/bcbio/config/genomes/GRCz11-resources.yaml
usr/share/bcbio/config/genomes/Sscrofa11.1-resources.yaml
usr/share/bcbio/config/genomes/TAIR10-resources.yaml
usr/share/bcbio/config/genomes/WBcel235-resources.yaml
usr/share/bcbio/config/genomes/canFam3-resources.yaml
usr/share/bcbio/config/genomes/dm3-resources.yaml
usr/share/bcbio/config/genomes/galGal4-resources.yaml
usr/share/bcbio/config/genomes/hg19-resources.yaml
usr/share/bcbio/config/genomes/hg38-noalt-resources.yaml
usr/share/bcbio/config/genomes/hg38-resources.yaml
usr/share/bcbio/config/genomes/mm10-resources.yaml
usr/share/bcbio/config/genomes/mm9-resources.yaml
usr/share/bcbio/config/genomes/phix-resources.yaml
usr/share/bcbio/config/genomes/pseudomonas_aeruginosa_ucbpp_pa14-resources.yaml
usr/share/bcbio/config/genomes/rn5-resources.yaml
usr/share/bcbio/config/genomes/rn6-resources.yaml
usr/share/bcbio/config/genomes/sacCer3-resources.yaml
usr/share/bcbio/config/genomes/xenTro3-resources.yaml
usr/share/bcbio/config/teaching
usr/share/bcbio/config/teaching/cancer-syn3-chr6-prep.sh
usr/share/bcbio/config/teaching/cancer-syn3-chr6.yaml
usr/share/bcbio/config/templates
usr/share/bcbio/config/templates/bisulfite_seq.yaml
usr/share/bcbio/config/templates/freebayes-variant.yaml
usr/share/bcbio/config/templates/gatk-joint-genotyping.yaml
usr/share/bcbio/config/templates/gatk-variant.yaml
usr/share/bcbio/config/templates/illumina-chipseq.yaml
usr/share/bcbio/config/templates/illumina-fastrnaseq.yaml
usr/share/bcbio/config/templates/illumina-rnaseq.yaml
usr/share/bcbio/config/templates/illumina-srnaseq.yaml
usr/share/bcbio/config/templates/indrop-singlecell.yaml
usr/share/bcbio/config/templates/noalign-variant.yaml
usr/share/bcbio/config/templates/purecn_pon.yaml
usr/share/bcbio/config/templates/purecn_ton.yaml
usr/share/bcbio/config/templates/somatic-duplex-umi.yaml
usr/share/bcbio/config/templates/somatic-single-umi.yaml
usr/share/bcbio/config/templates/somatic_tumor_only.yaml
usr/share/bcbio/config/templates/tumor-paired.yaml
usr/share/bcbio/config/transfer_info.yaml
usr/share/bcbio/config/vcfanno
usr/share/bcbio/config/vcfanno/GRCh37-dbnsfp.conf
usr/share/bcbio/config/vcfanno/GRCh37-dbscsnv.conf
usr/share/bcbio/config/vcfanno/GRCh37-gemini.conf
usr/share/bcbio/config/vcfanno/GRCh37-gemini.lua
usr/share/bcbio/config/vcfanno/GRCh37-gnomad_genome.conf
usr/share/bcbio/config/vcfanno/hg38-dbnsfp.conf
usr/share/bcbio/config/vcfanno/hg38-dbscsnv.conf
usr/share/bcbio/config/vcfanno/hg38-gemini.conf
usr/share/bcbio/config/vcfanno/hg38-gemini.lua
usr/share/bcbio/config/vcfanno/hg38-gnomad_genome.conf
usr/share/bcbio/config/vcfanno/mm10-gemini.conf
usr/share/bcbio/config/vcfanno/rnaedit.conf
usr/share/bcbio/config/vcfanno/rnaedit.lua
usr/share/bcbio/config/vcfanno/somatic.conf
usr/share/doc
usr/share/doc/bcbio
usr/share/doc/bcbio/copyright
usr/share/lintian
usr/share/lintian/overrides
usr/share/lintian/overrides/bcbio
usr/share/doc/bcbio/changelog.Debian.gz