m3hdad

m3hdad's Stars

• psf/black

  The uncompromising Python code formatter

  Language:Python39.4k2292.7k2.5k

• microsoft/winget-cli

  WinGet is the Windows Package Manager. This project includes a CLI (Command Line Interface), PowerShell modules, and a COM (Component Object Model) API (Application Programming Interface).

  Language:C++23.5k3232.7k1.5k

• google-deepmind/alphafold

  Open source code for AlphaFold 2.

  Language:Python13k2288682.3k

• griffithlab/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.

  Language:R1.3k18241620

• crazyhottommy/RNA-seq-analysis

  RNAseq analysis notes from Ming Tang

  Language:Python953787300

• RainCloudPlots/RainCloudPlots

  Code and tutorials to visualise your data that is both beautiful *and* statistically valid

  Language:HTML8402450223

• etetoolkit/ete

  Python package for building, comparing, annotating, manipulating and visualising trees. It provides a comprehensive API and a collection of command line tools, including utilities to work with the NCBI taxonomy tree.

  Language:Python80135519215

• davidemms/OrthoFinder

  Phylogenetic orthology inference for comparative genomics

  Language:Python72827924189

• weizhongli/cdhit

  Automatically exported from code.google.com/p/cdhit

  Language:Perl65128133130

• Edinburgh-Genome-Foundry/DnaFeaturesViewer

  :eye: Python library to plot DNA sequence features (e.g. from Genbank files)

  Language:Python608197493

• nextflow-io/awesome-nextflow

  A curated list of nextflow based pipelines

  57633289

• Ecogenomics/GTDBTk

  GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes.

  Language:Python4892346882

• pachterlab/BI-BE-CS-183-2023

  Introduction to Computational Biology and Bioinformatics Course at Caltech, 2023

  Language:Jupyter Notebook4619372

• crazyhottommy/bioinformatics-one-liners

  Bioinformatics one liners from Ming Tang

  459190128

• ncbi/pgap

  NCBI Prokaryotic Genome Annotation Pipeline

  Language:Common Workflow Language3233031691

• trinker/pacman

  A package management tools for R

  Language:HTML3141212837

• CRG-CNAG/CalliNGS-NF

  GATK RNA-Seq Variant Calling in Nextflow

  Language:Nextflow13292655

• iDEP-SDSU/idep

  Integrated Differential Expression and Pathway analysis

  Language:R1271415763

• ncbi/TPMCalculator

  TPMCalculator quantifies mRNA abundance directly from the alignments by parsing BAM files

  Language:C++125205233

• ebi-webcomponents/nightingale

  Data visualisation web components for the life sciences.

  Language:TypeScript124119338

• wrpearson/fasta36

  Git repository for FASTA36 sequence comparison software

  Language:C118135817

• SysBioChalmers/RAVEN

  The RAVEN Toolbox for genome scale model reconstruction, curation and analysis.

  Language:MATLAB1051313954

• nunofonseca/irap

  integrated RNA-seq Analysis Pipeline

  Language:R83156635

• DessimozLab/fold_tree

  snakemake pipeline for creating trees from sequence sets

  Language:Jupyter Notebook7011206

• mlin/PhyloCSF

  Phylogenetic analysis of multi-species genome sequence alignments to identify conserved protein-coding regions

  Language:OCaml64163124

• Edinburgh-Genome-Foundry/DnaCauldron

  :alembic: Simple cloning simulator (Golden Gate etc.) for single and combinatorial assemblies

  Language:Python5491711

• nf-core/rnavar

  gatk4 RNA variant calling pipeline

  Language:Nextflow381115832

• EBI-Metagenomics/mobilome-annotation-pipeline

  Language:Python29370

• ncbi/pm4ngs

  Project Manager for NGS data analysis

  Language:Python2818010

• hallamlab/FragGeneScanPlus

  Scalable high-throughput short-read open reading frame prediction

  Language:C1281311