pigx-rnaseq (0.1.1-3)
Details
Core information at a glance
- Distribution
- ubuntu
- Origin
- ubuntu-stonking
- Repository
- https://nl.archive.ubuntu.com/ubuntu
- Codename
- stonking
- Component
- universe
- Source
- none
- Architecture
- amd64v3
- Section
- universe/science
- Priority
- optional
- Maintainer
- Ubuntu Developers <[email protected]>
Size & integrity
Byte sizes and integrity verification
- Installed size
- 176 B
- Size expected
- 53.4 kB
- Size actual
- 53.4 kB
- Size match
Dependencies
Required package dependencies
- fastp
- fastqc
- hisat2 | rna-star
- libjs-jquery-datatables
- libjs-jquery-tablesorter
- megadepth
- multiqc
- python3:any
- python3-deeptools
- python3-htseq
- r-bioc-deseq2
- r-bioc-rtracklayer
- r-bioc-summarizedexperiment
- r-bioc-tximport
- r-cran-corrplot
- r-cran-crosstalk
- r-cran-data.table
- r-cran-dt
- r-cran-ggplot2
- r-cran-ggpubr
- r-cran-ggrepel
- r-cran-gprofiler2
- r-cran-pheatmap
- r-cran-plotly
- r-cran-reshape2
- r-cran-rjson
- r-cran-rlang
- r-cran-rmarkdown
- r-cran-scales
- salmon
- samtools
- snakemake
- trim-galore
Suggested packages
Recommended additional packages
- None
Description
pipeline for checkpointed and distributed RNA-seq analyses
Tags
Package classification tags
None
Checksums
Hash values and integrity verification status
| Type | Actual | Match |
|---|---|---|
| MD5 | 05e8cb17…ad2f53d5 | |
| SHA-1 | 5d47ac40…e962d638 | |
| SHA-256 | cd30c581…f70cf253 | |
| SHA-512 | 02b72d37…38bfcef3 |
Contents
Files and directories included
. usr usr/bin usr/bin/pigx-rnaseq usr/libexec usr/libexec/pigx_rnaseq usr/libexec/pigx_rnaseq/qsub-template.sh usr/libexec/pigx_rnaseq/scripts usr/libexec/pigx_rnaseq/scripts/collate_read_counts.R usr/libexec/pigx_rnaseq/scripts/count_reads.R usr/libexec/pigx_rnaseq/scripts/counts_matrix_from_SALMON.R usr/libexec/pigx_rnaseq/scripts/deseqReport.Rmd usr/libexec/pigx_rnaseq/scripts/norm_counts_deseq.R usr/libexec/pigx_rnaseq/scripts/runDeseqReport.R usr/libexec/pigx_rnaseq/scripts/translate_sample_sheet_for_report.R usr/libexec/pigx_rnaseq/scripts/validate_input.py usr/libexec/pigx_rnaseq/scripts/validate_input_annotation.R usr/libexec/pigx_rnaseq/snakefile.py usr/share usr/share/doc usr/share/doc/pigx-rnaseq usr/share/doc/pigx-rnaseq/CONTRIBUTING usr/share/doc/pigx-rnaseq/README.md usr/share/doc/pigx-rnaseq/changelog.Debian.gz usr/share/doc/pigx-rnaseq/copyright usr/share/doc/pigx_rnaseq usr/share/doc/pigx_rnaseq/README.md usr/share/man usr/share/man/man1 usr/share/man/man1/pigx-rnaseq.1.gz usr/share/pigx_rnaseq usr/share/pigx_rnaseq/Logo_PiGx.png usr/share/pigx_rnaseq/pretty.txt usr/share/pigx_rnaseq/sample_sheet.csv.example usr/share/pigx_rnaseq/settings.yaml