Most popular bioinformatics repositories and open source projects

ggcat

Compacted and colored de Bruijn graph construction and querying

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chembl-downloader

Write reproducible code for getting and processing ChEMBL

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rust-lapper

Rust implementation of a fast, easy, interval tree library nim-lapper

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variant-calling-pipeline-gatk4

Variant Calling Pipeline Using GATK4 and Nextflow

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colord

A versatile compressor of third generation sequencing reads.

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peptides.py

Physicochemical properties, indices and descriptors for amino-acid seq...

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SNPsplit

Allele-specific alignment sorting

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career

Список вакансий в Департаменте Вычислительной Биологии в компании BIOC...

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rkmh

Classify sequencing reads using MinHash.

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qmflows

This library tackles the construction and efficient execution of compu...

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epitopepredict

Python package and command line tool for epitope prediction

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VAPiD

VAPiD: Viral Annotation and Identification Pipeline

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RATTLE

Reference-free reconstruction and error correction of transcriptomes f...

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MetaCHIP

Horizontal gene transfer (HGT) identification pipeline

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mmtf

The specification of the MMTF format for biological structures

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bio_tools

Useful bioinformatic scripts

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mrna_vaccine_badge

A small badge showing a schematic of an mRNA vaccine nanoparticle and...

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pyobo

📛 A Python package for using ontologies, terminologies, and biomedica...

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miniwfa

A reimplementation of the WaveFront Alignment algorithm at low memory

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omicverse

A python library for multi omics included bulk and single cell RNA-seq...

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minimap2-rs

Rust bindings to minimap2 library

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transanno

accurate LiftOver tool for new genome assemblies

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jgi-query

A simple command-line tool to download data from Joint Genome Institut...

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awesome-bioinformatics

A curated list of awesome Bioinformatics databases, softwares, librari...

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Metabuli

Metabuli: specific and sensitive metagenomic classification via joint...

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AIML-in-Medicine-club

Repository for "AI/MD in Medicine" club in clubhouse

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StratiPy

Graph regularized nonnegative matrix factorization (GNMF) in Python

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MA

The Modular Aligner and The Modular SV Caller

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etrf

Exact Tandem Repeat Finder (not a TRF replacement)

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genevalidator

GeneValidator: Identify problems with predicted genes

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migec

A RepSeq processing swiss-knife

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MetaSRA-pipeline

MetaSRA: normalized sample-specific metadata for the Sequence Read Arc...

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covid19

🦠 Regularly updated list of publicly available datasets with single-c...

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sv-pipeline

Pipeline for structural variation detection in cohorts

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genepattern-notebook

Platform for integrating genomic analysis with Jupyter Notebooks.

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sparqlprog

logic programming with SPARQL

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phigaro

Phigaro is a scalable command-line tool for predicting phages and prop...

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swan_vis

A Python library to visualize and analyze long-read transcriptomes

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RiboCode

release version

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picardmetrics

:vertical_traffic_light: Run Picard on BAM files and collate 90 metric...

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bigly

a pileup library that embraces the huge

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cytometry-clustering-comparison

R scripts to reproduce analyses in our paper comparing clustering meth...

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pipeliner

A flexible Nextflow-based framework for the definition of sequencing d...

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shinyChromosome

an R/Shiny application for interactive creation of non-circular plots...

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kraken-biom

Create BIOM-format tables (http://biom-format.org) from Kraken output...

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redbiom

Sample search by metadata and features

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vrs-python

GA4GH Variation Representation Python Implementation

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aldy

Allelic decomposition and exact genotyping of highly polymorphic and s...

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cell2cell

User-friendly tool to infer cell-cell interactions and communication f...

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dnaPipeTE

dnaPipeTE (for de-novo assembly & annotation Pipeline for Transposable...

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