Paket: pigx-rnaseq (0.1.0-1.1)

Länkar för pigx-rnaseq

Debianresurser:

Hämta källkodspaketet pigx-rnaseq:

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Externa resurser:

Hemsida [github.com]

Liknande paket:

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.

Andra paket besläktade med pigx-rnaseq

beror

rekommenderar

föreslår

enhances

dep: fastp

Ultra-fast all-in-one FASTQ preprocessor
dep: fastqc

quality control for high throughput sequence data
dep: hisat2

graph-based alignment of short nucleotide reads to many genomes

eller rna-star

ultrafast universal RNA-seq aligner
dep: libjs-jquery-datatables

jQuery plug-in that makes nice tables from different data sources
dep: libjs-jquery-tablesorter

jQuery flexible client-side table sorting plugin
dep: megadepth

computes coverage from BigWig and BAM sequencing files
dep: multiqc

output integration for RNA sequencing across tools and samples
dep: python3

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

platform for exploring biological deep-sequencing data
dep: python3-htseq

Python3 high-throughput genome sequencing read analysis utilities
dep: r-bioc-deseq2

R package for RNA-Seq Differential Expression Analysis
dep: r-bioc-rtracklayer

GNU R interface to genome browsers and their annotation tracks
dep: r-bioc-summarizedexperiment

BioConductor assay container
dep: r-bioc-tximport

transcript-level estimates for biological sequencing
dep: r-cran-corrplot

Visualization of a Correlation Matrix
dep: r-cran-crosstalk

GNU R inter-widget interactivity for HTML widgets
dep: r-cran-data.table

GNU R extension of Data.frame
dep: r-cran-dt (>= 0.15+dfsg-2)

GNU R wrapper of the JavaScript library 'DataTables'
dep: r-cran-ggplot2

implementation of the Grammar of Graphics
dep: r-cran-ggpubr

GNU R ggplot2 based publication ready plots
dep: r-cran-ggrepel

auto-position non-overlapping text labels in plots
dep: r-cran-gprofiler2

Interface to the 'g:Profiler' Toolset
dep: r-cran-pheatmap

GNU R package to create pretty heatmaps
dep: r-cran-plotly

create interactive web graphics via 'plotly.js' in GNU R
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

ultrafast universal RNA-seq aligner

Hämta pigx-rnaseq

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Arkitektur	Paketstorlek	Installerad storlek	Filer
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