Paketti: python3-bcbio (1.2.5-1) [contrib]

[ Source: bcbio  ]

library for analysing high-throughput sequencing data

This package installs the Python 3 libraries of the bcbio-nextgen toolkit implementing best-practice pipelines for fully automated high throughput sequencing analysis.

A high-level configuration file specifies inputs and analysis parameters to drive a parallel pipeline that handles distributed execution, idempotent processing restarts and safe transactional steps. The project contributes a shared community resource that handles the data processing component of sequencing analysis, providing researchers with more time to focus on the downstream biology.

Muut pakettiin python3-bcbio liittyvät paketit

• dep: python3

  interactive high-level object-oriented language (default python3 version)

• dep: python3-biopython

  Python3 library for bioinformatics

• dep: python3-cyvcf2

  VCF parser based on htslib (Python 3)

• dep: python3-joblib

  tools to provide lightweight pipelining in Python

• dep: python3-logbook

  logging system for Python that replaces the standard library's module (Python3)

• dep: python3-matplotlib

  Python based plotting system in a style similar to Matlab (Python 3)

• dep: python3-psutil

  module providing convenience functions for managing processes (Python3)

• dep: python3-pysam

  interface for the SAM/BAM sequence alignment and mapping format (Python 3)

• dep: python3-requests

  elegant and simple HTTP library for Python3, built for human beings

• dep: python3-scipy

  scientific tools for Python 3

• dep: python3-six

  Python 2 and 3 compatibility library (Python 3 interface)

• dep: python3-tornado

  scalable, non-blocking web server and tools - Python 3 package

• rec: cnvkit

  Copy number variant detection from targeted DNA sequencing

• rec: gsort

  sort genomic data

• rec: libfreetype6

  FreeType 2 font engine, shared library files

• rec: lumpy-sv

  general probabilistic framework for structural variant discovery

• rec: mosdepth

  BAM/CRAM depth calculation biological sequencing

• rec: multiqc

  output integration for RNA sequencing across tools and samples

• rec: python3-arrow

  Python3 library to manipulate dates, times, and timestamps

• rec: python3-geneimpacts

  wraps command line tools to assess variants in gene sequences

• rec: python3-h5py

  general-purpose Python interface to hdf5

• rec: python3-pyvcf

  näennäispaketti, jonka toteuttaa python3-vcf

• rec: python3-seqcluster

  analysis of small RNA in NGS data

• rec: python3-statsmodels

  Python3 module for the estimation of statistical models

• rec: python3-tabulate

  pretty-print tabular data in Python3

• rec: r-bioc-purecn

  copy number calling and SNV classification using targeted short read sequencing

• rec: r-bioc-titancna

  Subclonal copy number and LOH prediction from whole genome sequencing

• rec: r-other-wasabi

  prepare Sailfish and Salmon output for downstream analysis using GNU R

• rec: seqan-apps

  C++ library for the analysis of biological sequences

• rec: vcfanno

  annotate a VCF with other VCFs/BEDs/tabixed files

• rec: vt

  toolset for short variant discovery in genetic sequence data

• sug: bcbio-doc

  Paketti ei saatavilla

• sug: python3-bioblend

  CloudMan and Galaxy API library (Python 3)

• sug: python3-dnapilib

  adapter prediction for small RNA sequencing - library

• sug: python3-msgpack

  Python 3 implementation of MessagePack format

Imuroi python3-bcbio

Imurointi kaikille saataville arkkitehtuureille

Arkkitehtuuri	Paketin koko	Koko asennettuna	Tiedostot
all	1,235.4 kt	4,851.0 kt	[tiedostoluettelo]