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advanced_training

Advanced Scikit-learn training session

alphafold

Open source code for AlphaFold.

awesome-riboseq

A list of bioinformatic tools for working with Ribo-Seq data

awesome-single-cell

Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

bbmap

(Not Offical) BBMap short read aligner, and other bioinformatic tools.

chm13

The complete sequence of a human genome

circos

Circos is a software package for visualizing data and information. It visualizes data in a circular layout — this makes Circos ideal for exploring relationships between objects or positions.

createrms

Creates Reaction Molecular Signatures (RMS) from MetaCyc reactions data and MOLfiles

curso_metagenomica_wbds

dge_workshop_salmon

dreamir

miRNA targets differential regulation analysis

drompaplus

ChIP-seq pipeline tool for quality check, normalization, statistical analysis, and visualization of multiple ChIP-seq samples.

enrichment-analysis

From RNA-seq raw reads to enriched pathways by DEGs

evo

DNA foundation modeling from molecular to genome scale

filtar

Using RNA-Seq data to improve microRNA target prediction accuracy in animals

foldseek

Foldseek enables fast and sensitive comparisons of large structure sets. It reaches sensitivities similar to state-of-the-art structural aligners while being at least 20,000 times faster.

friendsdontletfriends

Friends don't let friends make certain types of data visualization - What are they and why are they bad.

genescf

Gene Set Clustering based on Functional annotation

gget

🧬 gget enables efficient querying of genomic reference databases

intarna

Efficient target prediction incorporating accessibility of interaction sites

lung

Repository containing all the relevant code used for the publication investigating miRNA and mRNA expression of horses with severe equine asthma.

metaflux

mgatk

mgatk: mitochondrial genome analysis toolkit

mirna-mrna_integration

A detailed guide to analise and integrate small-RNASeq and RNASeq samples using miARma-Seq

my-brain-seq

myBrain-Seq: a Compi pipeline for miRNA-Seq data analysis in neuropsychiatry

openfold

Trainable, memory-efficient, and GPU-friendly PyTorch reproduction of AlphaFold 2

openmmforcefields

CHARMM and AMBER forcefields for OpenMM (with small molecule support)

ot-review

Bioinformatics analysis for CRSIPR/Cas9 off-target review

paolabc

readknead

Knead your sequencing reads before baking: clips, demultiplexes, filters and trims reads