dnscrypt-proxy 2 - A flexible DNS proxy, with support for encrypted DNS protocols.

Interactive Data Visualization in the browser, from Python

Shiny for Python

Data validation using Python type hints

Plugins for the Ensembl Variant Effect Predictor (VEP)

NEAT read simulation tools

Phenotype driven gene prioritization for HPO

NEAT (NExt-generation Analysis Toolkit) simulates next-gen sequencing reads and can learn simulation parameters from real data.

Configure workflow/pipeline tests using yaml files.

A collection of reusable WDL tasks. Category:Other

A BioWDL variantcalling pipeline for germline DNA data. Starting with FASTQ files to produce VCF files. Category:Multi-Sample

A BioWDL pipeline for processing RNA-seq data, starting with FASTQ files to produce expression measures and VCFs. Category:Multi-Sample

WDL implementation of the TALON workflow. Category:Multi-Sample InDevelopment

Worksheets to get started with the python software stack

An overview of all nanopack tools

Full-Length Alternative Isoform analysis of RNA

Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)

Tool for the Quality Control of Long-Read Defined Transcriptomes

Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads

Lima - Demultiplex Barcoded PacBio Samples

CCS: Generate Highly Accurate Single-Molecule Consensus Reads (HiFi Reads)

Classifier for metagenomic sequences

Plotting scripts for long read sequencing data

🪼 a python library for doing approximate and phonetic matching of strings.

Official git repository for Biopython (originally converted from CVS)

a python package for fast random access to sequences from plain and gzipped FASTA/Q files

Workflow Description Language developer tools & local runner

Singularity has been renamed to Apptainer as part of us moving the project to the Linux Foundation. This repo has been persisted as a snapshot right before the changes.

A versatile pairwise aligner for genomic and spliced nucleotide sequences