Pakiet źródłowy: bcbio (1.2.9-2)
[contrib]
Odnośniki dla bcbio
Zasoby systemu Debian:
Opiekunowie:
Zasoby zewnętrzne:
Z tego pakietu źródłowego zbudowano następujące pakiety binarne:
- bcbio
- toolkit for analysing high-throughput sequencing data
- python3-bcbio
- library for analysing high-throughput sequencing data
Inne pakiety związane z bcbio
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debhelper-compat
(= 13)
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dh-python
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python3-all
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python3-setuptools
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python3-gffutils
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python3-mock
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python3-pandas
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python3-pybedtools
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- adep:
python3-pysam
- interface for the SAM/BAM sequence alignment and mapping format (Python 3)
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python3-pyvcf
- pakiet wirtualny udostępniany przez
python3-vcf
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python3-toolz
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python3-tornado
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python3-yaml
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python3-scipy
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python3-psutil
- module providing convenience functions for managing processes (Python3)
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- adep:
python3-joblib
- tools to provide lightweight pipelining in Python
-
- adep:
atropos
- NGS read trimming tool that is specific, sensitive, and speedy
-
- adep:
bcftools
- Wywoływanie wariantów genomowych oraz zarządzanie plikami VCF i BCF
-
- adep:
bedtools
- suite of utilities for comparing genomic features
-
- adep:
biobambam2
- tools for early stage alignment file processing
-
- adep:
bowtie2
- ultrafast memory-efficient short read aligner
-
- adep:
bwa
- Burrows-Wheeler Aligner
-
- adep:
cnvkit
- Copy number variant detection from targeted DNA sequencing
-
- adep:
fastqc
- quality control for high throughput sequence data
-
- adep:
freebayes
- Bayesian haplotype-based polymorphism discovery and genotyping
-
- adep:
gffread
- GFF/GTF format conversions, region filtering, FASTA sequence extraction
-
- adep:
grabix
- wee tool for random access into BGZF files
-
- adep:
gsort
- sort genomic data
-
- adep:
hisat2
- graph-based alignment of short nucleotide reads to many genomes
-
- adep:
hts-nim-tools
- tools biological sequences: bam-filter, count-reads, vcf-check
-
- adep:
libfreetype6
- Silnik czcionek FreeType 2, pliki biblioteki współdzielonej
-
- adep:
lumpy-sv
- Ogólna platforma probabilistyczna do odkrywania wariantów strukturalnych
-
- adep:
mosdepth
- BAM/CRAM depth calculation biological sequencing
-
- adep:
multiqc
- output integration for RNA sequencing across tools and samples
-
- adep:
perl
- praktyczny język ekstrakcji i raportowania Larry'ego Walla
-
- adep:
libpicard-java
- Java library to manipulate SAM and BAM files
-
- adep:
libvcflib-tools
- C++ library for parsing and manipulating VCF files (tools)
-
- adep:
picard-tools
- Command line tools to manipulate SAM and BAM files
-
- adep:
python3-biopython
- Python3 library for bioinformatics
-
- adep:
python3-cyvcf2
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-
- adep:
python3-geneimpacts
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-
- adep:
python3-logbook
- logging system for Python that replaces the standard library's module (Python 3)
-
- adep:
python3-nose
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- adep:
python3-requests
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-
- adep:
python3-pytest
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-
- adep:
python3-pytest-mock
- Thin wrapper around mock for easier use with pytest (Python 3 module)
-
- adep:
python3-seqcluster
- analysis of small RNA in NGS data
-
- adep:
pythonpy
- 'python -c', with tab completion and shorthand
-
- adep:
rapmap
- rapid sensitive and accurate DNA read mapping via quasi-mapping
-
- adep:
rna-star
- ultrafast universal RNA-seq aligner
-
- adep:
r-base-core
- GNU R core of statistical computation and graphics system
-
- adep:
r-bioc-htsfilter
- GNU R filter replicated high-throughput transcriptome sequencing data
-
- adep:
r-bioc-degreport
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-
- adep:
r-bioc-purecn
- copy number calling and SNV classification using targeted short read sequencing
-
- adep:
r-bioc-summarizedexperiment
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-
- adep:
r-cran-tidyverse
- Easily Install and Load the 'Tidyverse'
-
- adep:
r-bioc-titancna
- Subclonal copy number and LOH prediction from whole genome sequencing
-
- adep:
r-bioc-tximport
- transcript-level estimates for biological sequencing
-
- adep:
r-other-wasabi
- prepare Sailfish and Salmon output for downstream analysis using GNU R
-
- adep:
salmon
- wicked-fast transcript quantification from RNA-seq data
-
- adep:
samblaster
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-
- adep:
samtools
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-
- adep:
seqan-apps
- C++ library for the analysis of biological sequences
-
- adep:
seqtk
- Fast and lightweight tool for processing sequences in the FASTA or FASTQ format
-
- adep:
snpeff
- genetic variant annotation and effect prediction toolbox - tool
-
- adep:
subread
- toolkit for processing next-gen sequencing data
-
- adep:
tabix
- Narzędzie do indeksowania plików z tabulacjami rozdzielającymi pozycje genomu
-
- adep:
tophat-recondition
- post-processor for TopHat unmapped reads
-
- adep:
umis
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-
- adep:
vcfanno
- annotate a VCF with other VCFs/BEDs/tabixed files
-
- adep:
vt
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-
- adep:
wham-align
- Wisconsin's High-Throughput Alignment Method
-
- adep:
xonsh
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- adep:
libhts-dev
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- adep:
python3-sphinx
- documentation generator for Python projects
