Пакет: pigx-rnaseq (0.1.1-1)

[ Источник: pigx-rnaseq  ]

pipeline for checkpointed and distributed RNA-seq analyses

This package provides a automated workflow for the automated analysis of RNA-seq experiments. A series of well-accecpted tools are connected in Python scripts and controlled via snakemake. This supports the parallel execution of these workflows and provides checkpointing, such that interrupted workflows can take up their work again.

Другие пакеты, относящиеся к pigx-rnaseq

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• dep: fastqc

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• dep: hisat2

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  или rna-star

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• dep: libjs-jquery-datatables

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• dep: libjs-jquery-tablesorter

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• dep: megadepth

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• dep: multiqc

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• dep: python3

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• dep: python3-deeptools

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• dep: python3-htseq

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• dep: r-bioc-deseq2

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• dep: r-bioc-rtracklayer

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• dep: r-bioc-summarizedexperiment

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• dep: r-bioc-tximport

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• dep: r-cran-corrplot

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• dep: r-cran-crosstalk

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• dep: r-cran-data.table

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• dep: r-cran-dt

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• dep: r-cran-ggplot2

  implementation of the Grammar of Graphics

• dep: r-cran-ggpubr

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• dep: r-cran-ggrepel

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• dep: r-cran-gprofiler2

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• dep: r-cran-pheatmap

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• dep: r-cran-plotly

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• dep: r-cran-reshape2

  Flexibly reshape data: a reboot of the reshape package

• dep: r-cran-rjson

  GNU R package for converting between R and JSON objects

• dep: r-cran-rlang

  Functions for Base Types and Core R and 'Tidyverse' Features

• dep: r-cran-rmarkdown

  convert R markdown documents into a variety of formats

• dep: r-cran-scales

  Scale functions for visualization

• dep: salmon

  wicked-fast transcript quantification from RNA-seq data

• dep: samtools

  processing sequence alignments in SAM, BAM and CRAM formats

• dep: snakemake

  pythonic workflow management system

• dep: trim-galore

  automate quality and adapter trimming for DNA sequencing

• rec: hisat2

  graph-based alignment of short nucleotide reads to many genomes

• rec: rna-star

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