Package: pigx-rnaseq (0.1.1-1)

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

dep: [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] [any]

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]

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