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advancedpythonforbio

Work from the book 'Advanced Python for Biologists'

alignment-and-variant-calling-tutorial

basic walk-throughs for alignment and variant calling from NGS sequencing data

an-introduction-to-applied-bioinformatics

Interactive lessons in bioinformatics.

aneufinder

Find CNVs in single cell sequencing data.

autocat

awesome

Awesome resources on Bioinformatics, data science, machine learning, programming language (Python, Golang, R, Perl) and miscellaneous stuff.

awesome-bioinformatics

A curated list of awesome Bioinformatics libraries and software.

awesome-bioinformatics-formats

Curated list of bioinformatics formats and publications

awesome-cancer-variant-databases

A community-maintained repository of cancer clinical knowledge bases and databases focused on cancer variants.

awesome-multi-omics

List of software packages for multi-omics analysis

awesome-single-cell

List of software packages for single-cell data analysis, including RNA-seq, ATAC-seq, etc.

bamdst

a lightweight bam file depth statistical tool

bamsurgeon

tools for adding mutations to existing .bam files, used for testing mutation callers

bayestyper

A method for variant graph genotyping based on exact alignment of k-mers

bcbb

Incubator for useful bioinformatics code, primarily in Python and R

bcbio-nextgen

Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis

bcftools

This is the official development repository for BCFtools. To compile, the develop branch of htslib is needed: git clone --branch=develop git://github.com/samtools/htslib.git htslib

bcl2fastq

NextSeq specific bcl2fastq2 wrapper.

beginning-python-for-bioinformatics

repository for the code featured in the blog

biofx_python

Code for Mastering Python for Bioinformatics (O'Reilly, 2021, ISBN 9781098100889)

bioinfo

Code from a bioinformatics course that dealt with basic statistical models as well as common bioinformatics algorithms using python.

bioinformatics

:microscope: Path to a free self-taught education in Bioinformatics!

bioinformatics-programming-using-python

Exercises from the 'Bioinformatics Programming using Python' book by Mitchell L Model

bioinformatics-workbook

bioinformatics_scripts

Some Python/R/* scripts for bioinformatics

biopython

Official git repository for Biopython (converted from CVS)

blast-validate

BLAST-based validation of metagenomic sequence assignments

bowtie

:bowtie: Create a dashboard with python!

capp-seq-docker

PANCEQ pipeline to call SNPs and CNVs from ultra-deep target tumor-normal sequencing data.

catch

A package for designing compact and comprehensive capture probe sets.