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Search results for docker bioinformatics
bioinformatics
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docker
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98 search results found
Nextflow
⭐
2,447
A DSL for data-driven computational pipelines
Cromwell
⭐
944
Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale production environments
Containers
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621
Bioinformatics containers
Redun
⭐
464
Yet another redundant workflow engine
Arvados
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354
An open source platform for managing and analyzing biomedical big data
Plip
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320
Protein-Ligand Interaction Profiler - Analyze and visualize non-covalent protein-ligand interactions in PDB files according to 📝 Adasme et al. (2021), https://doi.org/10.1093/nar/gkab294
Hicexplorer
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197
HiCExplorer is a powerful and easy to use set of tools to process, normalize and visualize Hi-C data.
Docker Builds
⭐
158
📦 🐳 Dockerfiles and documentation on tools for public health bioinformatics
Hts Nim
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151
nim wrapper for htslib for parsing genomics data files
Sarek
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126
Detect germline or somatic variants from normal or tumour/normal whole-genome or targeted sequencing
Dockstore
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113
Our VM/Docker sharing infrastructure and management component
Run_dbcan
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109
Run_dbcan V4, using genomes/metagenomes/proteomes of any assembled organisms (prokaryotes, fungi, plants, animals, viruses) to search for CAZymes.
Instrain
⭐
104
Bioinformatics program inStrain
Biofsharp
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94
Open source bioinformatics and computational biology toolbox written in F#.
Plant Seg
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81
A tool for cell instance aware segmentation in densely packed 3D volumetric images
Oswitch
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75
Provides access to complex Bioinformatics software (even BioLinux!) in just one command.
Butler
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68
Butler is a framework for running scientific workflows on public and academic clouds.
Tibanna
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68
Tibanna helps you run your genomic pipelines on Amazon cloud (AWS). It is used by the 4DN DCIC (4D Nucleome Data Coordination and Integration Center) to process data. Tibanna supports CWL/WDL (w/ docker), Snakemake (w/ conda) and custom Docker/shell command.
Havengrc
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68
☁️Haven GRC - easier governance, risk, and compliance 👨⚕️👮♀️🦸♀️🕵️♀️👩🔬
Uta
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59
Universal Transcript Archive: comprehensive genome-transcript alignments; multiple transcript sources, versions, and alignment methods; available as a docker image
Mulled
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49
Mulled - Automatized Containerized Software Repository
Specs
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47
BioContainers specifications
Asap
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46
A scalable bacterial genome assembly, annotation and analysis pipeline
Dentist
⭐
44
Close assembly gaps using long-reads at high accuracy.
Mmseqs2 App
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44
MMseqs2 app to run on your workstation or servers
Balsamic
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40
Bioinformatic Analysis pipeLine for SomAtic Mutations In Cancer
Dockerfiles
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39
This repository contains Docker files for the images maintained by the Phenotypic Evolution Group at the Institute for Molecular and Cell Biology / Instituto de Investigação e Inovação em Saúde da Universidade do Porto.
Galaxy Rna Workbench
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38
Galaxy RNA workbench
Pretzel
⭐
36
Javascript full-stack framework for Big Data visualisation and analysis
Antigen.garnish
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35
Bisqueucsb
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33
An ML Platform for storing, analyzing, and visualizing your data all in the browser.
Deepinteract
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33
A geometric deep learning pipeline for predicting protein interface contacts.
Bio Dockers
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32
🐳 Bio-dockers: dockerized bioinformatic tools
Gcv
⭐
32
Federating genomes with love (and synteny derived from functional annotations)
Nf Hack17 Tutorial
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31
Nextflow basic tutorial for newbie users
Workflows
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28
Bioinformatics workflows developed for and used on the St. Jude Cloud project.
Rnacentral Webcode
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25
RNAcentral website source code
Hotsub
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23
Command line tool to run batch jobs concurrently with ETL framework on AWS or other cloud computing resources
Staphb_toolkit
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23
Python Toolkit for using containerized programs in either Singularity or Docker
Docker 4dn Hic
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23
Docker for 4DN Hi-C processing pipeline
Kogia
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22
Docker containers for bioinformatics with a small footprint
Cgpbigwig
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22
BigWig manpulation tools using libBigWig and htslib
Bioindocker15
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21
[Bio in Docker] Symposium 2015
Registry
⭐
21
Docker for Bioinformatics
Zika Pipeline
⭐
19
The Zika bioinformatics pipeline
Cemitool
⭐
19
Co-Expression Module Identification Tool (CEMiTool) official repository
Docker4seq
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18
Running NGS computing demanding applications, e.g reads mapping and counting, wrapped in docker containers.
Gatk4_best_practice
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18
GATK4 Best Practice Nextflow Pipeline
Catt
⭐
18
An ultra-sensitive and precise tool for characterizing T cell CDR3 sequences in TCR-seq and RNA-seq data.
Lifelike
⭐
18
Turning big data into contextualized knowledge. Lifelike is a modern application platform for data extraction, analysis and visualization.
Cookiecutter
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18
DEPRECIATED! Please use nf-core/tools instead
Vesselexpress
⭐
17
🔬🖥 Automated Blood Vasculature Analysis of 3D Light-Sheet Image Volumes
Galaksio
⭐
17
An easy-to-use way for running Galaxy workflows.
Metasub_cap
⭐
16
A comprehensive pipeline for short read metagenomic data
Parkour2
⭐
16
Parkour2: Laboratory Information Management System 👩🏻🔬 🧬 👨🏽💻
Dugong
⭐
15
🐳 Dugong - Scientific Linux Container
Fr3d Python
⭐
14
Python implementation of the FR3D software for searching and annotating RNA 3D structures
Container_recipes
⭐
14
Repository with all my container recipes 👩🍳
Chronqc
⭐
13
Manuscript describing ChronQC is now available online in Bioinformatics
Functree Ng
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13
An interactive radial tree for functional hierarchies and omics data visualization
Bio Workshop 18
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13
Pawsey workshop: containers for bioinformatics
Grandeur
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13
UPHL's Reference Free Pipeline
Gooddoc
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12
A Template for Clear and Simple Documentation of Bioinformatics Code
Genomehubs
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12
Search and explore genomic metadata, Earth BioGenome Project progress and assembly features
Bixtools
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12
🐳 Dockerfiles for bioinformatics tools
Hicbrowser
⭐
11
Simple web browser to visualize HiC tracks
Faerun
⭐
11
Web-based visualization of large, high-dimensional datasets.
Guidock
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11
Graphical GUI for Docker (Bioconductor, R, Cytoscape, NetworkBMA)
Pomashiny
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11
🍎 Web-based User-friendly Workflow for Metabolomics and Proteomics Data Analysis
Containers Rules Manuscript
⭐
10
Recommendations to contenarized your bioinformatics software
Nasqar
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10
NASQAR: A web-based platform for High-throughput sequencing data analysis and visualization
Bioinformatics Toolbox
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10
Docker container for bioinformatics tools and pipelines
Rcasc
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10
rCASC: reproducible Classification Analysis of Single Cell Sequencing Data
Docker Paraviewweb
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10
🐳 ParaViewWeb running in a docker container. This image can be used to integrate ParaViewWeb into Galaxy
Tostadas
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10
🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission
Reproducible_bioinformatics
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10
Workshop material for BioC Asia 2019
Flowbio
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9
A fast, easy way to present complex bioinformatics pipelines to biologists
Algorun
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9
A Docker-based packaging system for platform-agnostic implemented algorithms
Pygmql
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9
Python Library for data analysis based on GMQL
Bh15
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9
NBDC/DBCLS BioHackathon 2015
Multiple_sclerosis_proj
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8
Data analysis platform/structure, machine learning/AI project for multiple sclerosis
Docker Ngs Tools
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8
A catalogue of docker images for NGS data analysis tools
Snakemake_rnaseq
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8
A Snakemake pipeline to go from fastq mRNA sequencing files to raw and normalised counts (usable for downstream EDA and differential analysis)
Htsinfer
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7
HTSinfer infers metadata from Illumina high throughput sequencing (HTS) data
Docker 4 Bioinformatics
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7
Short Course to get Bioinformaticians at CRUK-CI up-to-speed on Docker
Iscb Diversity
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7
Analyzing diversity of ISCB keynote speakers & fellows compared to the field of bioinformatics
Stencil
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7
A web templating engine for visualizing and sharing life science datasets
Docker Linuxbrew Bio
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7
Docker images of bioinformatics software built with Linuxbrew
Containerinception
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6
Gerber: Generalized Easy Reproducible Bioinformatics Environment wRapper
Donut
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6
Donut: automated Circos visualization of multiple fasta files within a docker image
Bioc2020rcwl
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6
Bioconductor toolchain for usage and development of reproducible bioinformatics pipelines
Dockflow
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6
Containerize Bioconductor Workflows
Wobidisco
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5
Workflows Bioinformatics and Discoballs: The Biokepiverse
Nf Repeatmasking
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5
Nextflow workflow for automatic repeat detection, classification and masking
Rfam Website
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5
Rfam website source code
Microbiome
⭐
5
The standardized analysis pipeline used for analyzing 16S and metagenome data.
Galaxy4developers
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5
Training Course on Galaxy for Bioinformatics tool developers
Nextflow Course 2018
⭐
5
IARC nextflow course for pipeline users
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