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abra

Assembly Based ReAligner

alpha-centauri

A python package from Pacific Biosciences to analyze centromeric sequences

analysis_utils

little script used in ngs or microarray analysis

anno

Anno is a variant annotation tool

apps-scripts

Miscellaneous scripts for applications of PacBio systems

awesome-django

A curated list of awesome Django apps, projects and resources.

awesome-single-cell

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

bam2bax

Convert PacBio (post 3.0) bam files to (pre 3.0) bax.h5 files.

bcbio-nextgen

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

biocluster

Tutorial on building a computing cluster for bioinformatics

bioinformatics

Bioinformatics analysis scripts, workflows, general code examples

bioinformatics-programming-using-python

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

bionexr

an R package for integrative network-based analysis of gene somatic mutation and gene expression data to identify cancer drivers

bioutils

Python scripts for miscellaneous bioinformatics stuff.

brc_mh_bioinformatics

Collection of pipelines, workflows and scripts for processing SNP and gene expression arrays and NGS data

clinvar

This repo provides tools to convert ClinVar data into a tab-delimited flat file, and also provides that resulting tab-delimited flat file.

community_software_tools_for_ngs

complexheatmap

Make Complex Heatmaps

conterminator

Detection of incorrectly labeled sequences across kingdoms

deep_learning_examples

Examples of using deep learning in Bioinformatics

detin

DeTiN is designed to measure tumor-in-normal contamination and improve somatic variant detection sensitivity when using a contaminated matched control.

django-rest-pandas

Serves up Pandas dataframes via the Django REST Framework for use in client-side (i.e. d3.js) visualizations and offline analysis (e.g. Excel)

enhancedfalcon

FALCON: experimental PacBio diploid assembler

exon_skipping

Collection of manually-curated variants that cause exon skipping

gemini

a lightweight db framework for exploring genetic variation.

gene_lists

List of gene lists for genomic analyses.

gms

The Genome Modeling System installer

hail

Scalable genetic data analysis.

haplorec

A database that uses data from PharmGKB to map: snp -> haplotype -> gene phenotypes -> therapeutic drug recommendations

hitwalker2