Cookiecutter template for a Python package.

Analysis of IGVF mouse founder dataset

flopp is a software package for single individual haplotype phasing of polyploid organisms from long read sequencing.

tools for working with genome variation graphs

Demultiplexing and debarcoding tool designed for LR-Split-seq data.

Make a conjugation deck for Catalan

R package to detect splicing QTLs (sQTLs)

An accurate GFF3/GTF lift over pipeline

compact: co-expression module perturbation analysis

uPU, nnPU and PN learning with Extra Trees classifier.

TransDecoder source

Visualizing transcript structure and annotation using ggplot2

Repository to call rDNA variants from short read WGS

PBSIM3: a simulator for all types of PacBio and ONT long reads

Non-parametric, asymptotic P-value computation for multivariate linear models

LongcallR is a SNP caller for single molecule long-read RNA-seq data

A Grammar of Graphics for Python

High dimensional weighted gene co-expression network analysis

Intervene: a tool for intersection and visualization of multiple genomic region and gene sets

utility functions for snakemake

Gencode UTR fix

Extremely fast Query Engine for DataFrames, written in Rust

This is the development home of the workflow management system Snakemake. For general information, see

create, manage, and upload track hubs for use in the UCSC genome browser

IsoTools is a python module for Long Read Transcriptome Sequencing (LRTS) analysis.

Long-reads-based Alternative Termination Estimation and Recognition (LATER)