AhmedArslan

Pyntheon

Pyntheon; A post translational modifications (PTMs) mapping tool for 87 different species, these PTMs are taken from a large array of popular lab specimens.

TransSite

predicting the change in protein transport-sequence activity upon the presence of genetic variations. (beta)

arcsv

Complex structural variant detection from WGS data

Awesome-Bioinformatics

A curated list of awesome Bioinformatics libraries and software.

awesome-genome-visualization

A list of interesting genome browser or genome-browser-like implementations

CHM13

Ultra-long reads for CHM13 genome assembly

CNV_FunctionalAnnotation

deeplearning-biology

A list of deep learning implementations in biology

deepmind-research

This repository contains implementations and illustrative code to accompany DeepMind publications

fastbook

The fastai book, published as Jupyter Notebooks

fishHook

R package for applying Gamma-Poisson regression to identify statistical enrichment or depletion of somatic mutations in regions after correcting for genomic covariates.

gnomad_qc

graphia

A visualisation tool for the creation and analysis of graphs

GWA_tutorial

A comprehensive tutorial about GWAS and PRS

hifiasm

Hifiasm: a haplotype-resolved assembler for accurate Hifi reads

JaBbA

MIP based joint inference of copy number and rearrangement state in cancer whole genome sequence data.

janggu

Deep learning infrastructure for bioinformatics

mMap

Computational tool the prioritizing the genetic candidates based on the protein functional features

NASQAR

NASQAR: A web-based platform for High-throughput sequencing data analysis and visualization

orf_mm10

small ORF file for mm10 (mouse) genome for UTRannotator vep Plugin

prospr

ProSPr: Protein Structure Prediction

Proteogenomics

Analysis to map update CHO genome annotation using protegenomics method

RNA-seq-analysis

RNAseq analysis notes from Ming Tang

rnaseq_tutorial

Informatics for RNA-seq: A web resource for analysis on the cloud. Educational tutorials and working pipelines for RNA-seq analysis including an introduction to: cloud computing, critical file formats, reference genomes, gene annotation, expression, differential expression, alternative splicing, data visualization, and interpretation.

swagg

tensorsignatures

Learning mutational signatures and their multidimensional genomic properties

ThousandVariantCallersRepo

Thousand Variant Callers Project Repository

tsd

Target sequencing discovery using long reads

vg

tools for working with genome variation graphs

Xpresso

Predicting gene expression levels from genomic sequences