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bioinformatics
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73 search results found
Bioconda Recipes
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1,539
Conda recipes for the bioconda channel.
Getting Started With Genomics Tools And Resources
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991
Unix, R and python tools for genomics and data science
Rush
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782
A cross-platform command-line tool for executing jobs in parallel
Juicer
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313
A One-Click System for Analyzing Loop-Resolution Hi-C Experiments
Bpipe
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220
Bpipe - a tool for running and managing bioinformatics pipelines
Biosyntax
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184
Syntax highlighting for computational biology
Genome_updater
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123
Bash script to download/update snapshots of files from NCBI genomes repository (refseq/genbank) with track of changes and without redundancy
Edamontology
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110
EDAM is an ontology of bioscientific data analysis and data management. EDAM concentrates on topics, operations, types of data, and data formats related to analysis, modelling, optimisation, and data life-cycle in biosciences, and in other research and science-based applications.
Bionitio
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92
Demonstrating best practices for bioinformatics command line tools
Smk Simple Slurm
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80
A simple Snakemake profile for Slurm without --cluster-config
Packages
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70
Aim to be the bioinformatics repository with more and newer packages
Cut Runtools 2.0
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62
CUT&RUN and CUT&Tag data processing and analysis
Teamteri
⭐
50
Genomics (computational bioinformatic data analysis) running on GCP, AWS or Azure
Microbiomebestpracticereview
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45
Current Challenges and Best Practice Protocols for Microbiome Analysis using Amplicon and Metagenomic Sequencing
Phykit
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44
a UNIX shell toolkit for processing and analyzing multiple sequence alignments and phylogenies
Mmtf
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43
The specification of the MMTF format for biological structures
Genera
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41
genEra is a fast and easy-to-use command-line tool that estimates the age of the last common ancestor of protein-coding gene families.
Cannoli
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37
Distributed execution of bioinformatics tools on Apache Spark. Apache 2 licensed.
Dee2
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37
Digital Expression Explorer 2 (DEE2): a repository of uniformly processed RNA-seq data
Cytomine Bootstrap
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35
Cytomine Community Edition Legacy
Picardmetrics
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34
🚦 Run Picard on BAM files and collate 90 metrics into one file.
Bioinftraining
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29
Repository for bioinformatics training at the Norwegian Veterinary Institute
Biozsh
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29
the z in bioinformatics
Orthoevolution
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28
An easy to use and comprehensive python package which aids in the analysis and visualization of orthologous genes. 🐵
Bio.brew
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27
A tiny package manager for crucial unix and bioinformatics tools
Vapid
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27
VAPiD: Viral Annotation and Identification Pipeline
Ctdna Pipeline
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24
A simplified pipeline for ctDNA sequencing data analysis
Common_analyses
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20
Repository of common bioinformatics scripts
Jaxbd2k Shortcourse
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19
This repository contains course materials from JAX-BD2K workshop.
Peptide Prediction List
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18
Collects software dedicated to predicting specific properties of peptides
Bioinformaticsmaterials
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18
Syllabus and materials for bioinformatics lecture + lab
Team Rosalind Project
⭐
18
This is the main repository for the HackBio'2020 Virtual Internship Experience ❤️
Genomics_adventure
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17
Workshop on Genomics - Genomics Adventure
Pipernaseq
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16
A comprehensive pipeline for RNAseq data analysis
Rmap
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15
Bacterial analysis Toolbox for profiling the Resistome of ESKAPE pathogens using WGS
Introme
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15
Introme prioritises coding and noncoding splice-altering variants for clinical variant interpretation
Tib Filoinfo
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14
Talleres Internacionales de Bioinformática - Centro de Ciencias Genómicas, UNAM, Cuernavaca, México
Bioinformatics Tools
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14
Small and simple scripts useful for various bioinformatics purposes e.g. extract sequences from fasta files
Bio Workshop 18
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13
Pawsey workshop: containers for bioinformatics
Prophage_tracer
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13
Prophage Tracer: precisely tracing prophages in prokaryotic genomes using overlapping split-read alignment
Compbio Gists
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12
Computational Biology & Bioinformatics Resources
H2o Curated Data
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11
Semi-hand curated command-line option data for many CLI programs, geared toward bioinformatics tools. Shell completion scripts are also available.
Epigenomicstutorial Ismb2017
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11
Repository for the Epigenomics Tutorial hold at ISMB 2017 in Prague
Guidock
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11
Graphical GUI for Docker (Bioconductor, R, Cytoscape, NetworkBMA)
Motifscan
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11
A motif discovery tool to detect the occurrences of known motifs
Deepvariant On Spark
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11
DeepVariant-on-Spark is a germline short variant calling pipeline that runs Google DeepVariant on Apache Spark at scale.
Piperiboseq
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10
A comprehensive pipeline for Ribo-seq data analysis
Ng Meta Profiler
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10
Profiler for metagenomics based on NGLess
Tangram
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10
🔲⚛️ A collection of molecular modelling tools for UCSF Chimera
Cpg_me
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10
A whole genome bisulfite sequencing (WGBS) pipeline for the alignment and QC of DNA methylation that goes from from raw reads (FastQ) to a CpG count matrix (Bismark cytosine reports)
Sv_benchmark_cmrg
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10
Structural variant benchmark of challenging medically relevant genes
Containers Rules Manuscript
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10
Recommendations to contenarized your bioinformatics software
Flowbio
⭐
9
A fast, easy way to present complex bioinformatics pipelines to biologists
Cholar
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9
Automated RNA-seq pipeline for lncRNA indentification
Uorf4u
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9
uorf4u is a bioinformatics tool for conserved upstream ORF annotation.
Coimbra Et Al 2021_currbiol
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9
Code used to analyse WGS data of giraffe in Coimbra et al. 2021 (https://doi.org/10.1016/j.cub.2021.04.033)
Jasper
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8
This is the official site for JASPER (Jellyfish based Assembly Sequence Polisher for Error Reduction)
Aphylogeo
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7
aPhyloGeo is a multiplatform application for the analysis of genetic and climatic conditions.
Workflows
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7
Snakemake workflows for best practice genomic analysis
Bear
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7
BEAR: viral diagnostic analysis pipeline for SARS-CoV-2
Docs
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7
Documentation on St. Jude Cloud.
Esviritu
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7
Read mapping pipeline for detection and measurement of virus pathogens from metagenomic or clinical data
Bio525d
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6
A short course on Bioinformatics for Evolutionary Biology
P2rank Framework
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6
The central entry point to the P2Rank project with links to the individual projects, including references to documentation, datasets, etc.
Shell_intro_for_bioinformatics_stg
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6
Intro to Shell for Bioinformatics - with STG examples
Donut
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6
Donut: automated Circos visualization of multiple fasta files within a docker image
Fastq To Bam
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5
Optimised pipeline to process whole genome sequence data from fastq to BAM on NCI Gadi
Bioinfougrp
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5
OIST Bioinfo user group
Akutils_ubuntu_installer
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5
Bioinformatics packages I like and use. All installed by one convenient script.
Metabolicprofile_inferring
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5
Metagenomic functional annotation pipeline
Btw
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5
BTW – Bioinformatics Through Windows: an easy-to-install package to analyze 16S rRNA data
Easy_circos
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5
easy_circos is a simple conda package that aims on rapidly and easily creating minimal circos configurations templates based on input data.
Ribotaxa
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5
RiboTaxa: combined approaches for rRNA genes taxonomic resolution down to the species level from metagenomics data revealing novelties.
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