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manta

Structural variant and indel caller for mapped sequencing data

mantis2

Microsatellite Analysis for Normal-Tumor InStability (v2)

mill

Your shiny new Java/Scala build tool!

miniwdl

A static analysis toolkit for the Workflow Description Language

miniwdl-feedstock

A conda-smithy repository for miniwdl.

multiqc

Aggregate results from bioinformatics analyses across many samples into a single report.

multiqc_testdata

Test data for MultiQC. See https://github.com/ewels/MultiQC

mypy

Optional static typing for Python 3 and 2 (PEP 484)

nextflow

A DSL for data-driven computational pipelines

nf-co.re

Code and files for the main nf-core website.

nf-tower

Nextflow Tower system

nf-tower-docs

Nextflow Tower Documentation

nh13

noodles

Bioinformatics I/O libraries in Rust

octopus

Bayesian haplotype-based mutation calling

orfquant

An R package for Splice-aware quantification of translation using Ribo-seq data

parallel-fastq-dump

parallel fastq-dump wrapper

pbgzip

Parallel Block GZIP

ped-sim

Pedigree simulator

perbase

Per-base per-nucleotide depth analysis

picard

A set of tools (in Java) for working with next generation sequencing data in the BAM (http://samtools.sourceforge.net) format.

pizzly

Fast fusion detection using kallisto

primer3

Primer3 is a command line tool to select primers for polymerase chain reaction (PCR).

primer3-org.github.io

Primer3-org Organisation Homepage

probhap

Probabilistic single-individual haplotyping

proglog

Simple, thread-safe, counter based progress logging

pyd4

The python binding for D4 format

pyhocon-feedstock

A conda-smithy repository for pyhocon.

pysam

Pysam is a Python module for reading and manipulating SAM/BAM/VCF/BCF files. It's a lightweight wrapper of the htslib C-API, the same one that powers samtools, bcftools, and tabix.

pyvcf

A Variant Call Format reader for Python.