Starred repositories
TPMCalculator quantifies mRNA abundance directly from the alignments by parsing BAM files
FastTree 2: Approximately-Maximum-Likelihood Trees for Large Alignments
A shell parser, formatter, and interpreter with bash support; includes shfmt
AuReMe / emapper2gbk
Forked from ArnaudBelcour/gff_to_gbkConvert GFF, fastas, annotation table and species name into Genbank.
CRBHits - a reimplementation of the Conditional Reciprocal Best Hit algorithm in R.
Plot Twist: Adding Interactivity to the Elegance of ggplot2 with ggiraph
Command-line tool for the visualization of splicing events across multiple samples
A human-friendly and fast alternative to cut (and sometimes awk)
A collection of modern/faster/saner alternatives to common unix commands.
Single-cell spatial proteomics analysis that makes you happy!
Visualize coverage, canonical, and backsplice junctions.
A small R package to make sequencing read coverage plots in R.
Source code for JBrowse 2, a modern React-based genome browser
Produce reproducible, pretty genome coverage plots using highly customizable layout and coverage normalization, batch correction etc.
Visualize and annotate genomic coverage with ggplot2
RNA-seq prediction with deep convolutional neural networks.
A dependency-free large (+2500) collection of colormaps and palettes for Python 🎨
JBrowse 2 plugin for editing annotations on an Apollo server
Infering ancestral synteny with hierarchical orthologous groups
The Moby Project - a collaborative project for the container ecosystem to assemble container-based systems
rapids_singlecell: GPU-accelerated framework for scRNA analysis
PASTA (Practical Alignment using SATe and Transitivity)