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acg

A modular, efficient genealogy sampler that works with recombination

bioalignments.jl

Sequence alignment tools

bmftools

Barcoded Molecular Families

dx-toolkit

DNAnexus platform client libraries.

gatk

GATK Official Release Repository

geneticvariation.jl

Datastructures and algorithms for working with genetic variation

gym-bandits

Bandits Environments for the OpenAI Gym

gym-minigrid

Minimalistic gridworld package for OpenAI Gym

htsjdk

A Java API for high-throughput sequencing data (HTS) formats.

jovian

Detecting variants in NGS short read data by sequence-to-sequence modeling

kmer_sniper

kmer analysis of sequence and bed files

langchain

⚡ Building applications with LLMs through composability ⚡

maxentpy

Python wrapper for MaxEntScan to calculate splice site strength.

midjourney-styles-and-keywords-reference

A reference containing Styles and Keywords that you can use with MidJourney AI. There are also pages showing resolution comparison, image weights, and much more!

mosdepth

fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing

mttr

openslide-python

Python bindings to OpenSlide

picard

A set of tools (in Java) for working with next generation sequencing data in the BAM (http://samtools.github.io/hts-specs) format.

pipeline

Workflow pipeline for bioinformatics

practice

Just a practice repo

pysam

Pysam is a python module for reading and manipulating Samfiles. It's a lightweight wrapper of the samtools C-API. Pysam also includes an interface for tabix.

skyviz

A visualization tool for Bayesian skyline plots

snpsvm

A support vector machine for calling variants from next-gen sequencing data

streamsorter

A multithreaded sorting utility that reads from a stream and can be used for very large datasets. Designed to work well with next generation sequencing data sets.

sunfish

A general purpose viewer for genetic sequence data, trees, and networks

swxmlhash

Simple XML parsing in Swift

tensorflow-examples

TensorFlow tutorials and code examples for beginners

treesimj

Foward-time population genetic simulator

varcomp

Tools for calling and comparing variants from simulated read sets

varianttoolchest