Awesome Open Source
Search
Programming Languages
Languages
All Categories
Categories
About

The Top 23 Python Bioinformatics Snakemake Open Source Projects

Open source projects categorized as Python Bioinformatics Snakemake
Categories > Data Processing > Bioinformatics
Categories > Snakemake
Metagem ⭐ 155
💎 An easy-to-use workflow for generating context specific genome-scale metabolic models and predicting metabolic interactions within microbial communities directly from metagenomic data
most recent commit 4 months ago
Seq2science ⭐ 132
Automated and customizable preprocessing of Next-Generation Sequencing data, including full (sc)ATAC-seq, ChIP-seq, and (sc)RNA-seq workflows. Works equally easy with public as local data.
most recent commit 5 months ago
Snakefmt ⭐ 131
The uncompromising Snakemake code formatter
dependent packages 2total releases 29most recent commit 3 months agopypi snakefmt} Downloads
Multiprime ⭐ 123
multiPrime is a mismatch-tolerant minimal primer set design tool for large and diverse sequences (e.g. Virus). Here is a web-based version (test: http://multiPrime.cn))
most recent commit 3 months ago
Tibanna ⭐ 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.
dependent packages 1total releases 280most recent commit 3 months agopypi tibanna} Downloads
Snakefiles ⭐ 58
🐍 Snakefiles for common RNA-seq data analysis workflows.
most recent commit 7 years ago
Sv Callers ⭐ 52
Snakemake-based workflow for detecting structural variants in genomic data
most recent commit a year ago
Lsf ⭐ 29
Snakemake profile for running jobs on an LSF cluster
most recent commit 8 months ago
Zarp ⭐ 26
Zavolan-Lab Automated RNA-Seq Pipeline
most recent commit 4 months ago
Atacseq_pipeline ⭐ 25
Ultimate ATAC-seq Data Processing & Quantification Workflow. A Snakemake implementation of the BSF's ATAC-seq Data Processing Pipeline extended by downstream quantification and annotation steps using bash and Python.
most recent commit 2 months ago
Phylociraptor ⭐ 23
rapid phylogenomic tree calculator - A highly customizable framework for reproducible phylogenomic inference
most recent commit 5 months ago
Iliad ⭐ 21
ILIAD: A suite of automated Snakemake workflows for processing genomic data for downstream applications
most recent commit 4 months ago
Pigx_rnaseq ⭐ 19
Pipeline for RNAseq
most recent commit 5 months ago
Kgwasflow ⭐ 19
kGWASflow is a Snakemake workflow for performing k-mers-based GWAS.
most recent commit 6 months ago
Vesselexpress ⭐ 17
🔬🖥 Automated Blood Vasculature Analysis of 3D Light-Sheet Image Volumes
most recent commit a year ago
Daylily ⭐ 15
A NGS analysis framework for WGS data, which automates the entire process of spinning up AWS EC2 spot instances and processing FASTQ to snvVCF in <60m, for dollars a sample and achieving Fscores of 0.998.
most recent commit 6 months ago
Snakemake Novice Bioinformatics ⭐ 14
Introduction to Snakemake for Bioinformatics
most recent commit 5 months ago
Snakemake Wrappers ⭐ 14
🐍 Snakemake wrappers for bioinformatics.
most recent commit a year ago
Qadabra ⭐ 13
Snakemake workflow for comparison of differential abundance ranks
most recent commit 3 months ago
Ymp ⭐ 13
Flexible omics pipeline
total releases 6most recent commit 3 years ago
Ngs Pipeline ⭐ 12
Pipeline for Somatic Variant Calling with WES and WGS data
most recent commit a year ago
Pigx_bsseq ⭐ 10
bisulfite sequencing pipeline from fastq to methylation reports
most recent commit a year ago
Enrichment_analysis ⭐ 10
A Snakemake workflow for performing genomic region set and gene set enrichment analyses using LOLA, GREAT, and GSEApy.
most recent commit 9 months ago
The 2 Most Depended On Python Bioinformatics Snakemake Open Source Projects
The 6 Latest Releases In Python Bioinformatics Snakemake Open Source Projects
Snakefmt ⭐ 131
The uncompromising Snakemake code formatter
dependent packages 2total releases 29latest release October 05, 2023most recent commit 3 months agopypi snakefmt} Downloads
Xebec ⭐ 5
Snakemake pipeline for microbiome diversity effect size benchmarking
total releases 2latest release June 08, 2022most recent commit a year ago
Ymp ⭐ 13
Flexible omics pipeline
total releases 6latest release August 17, 2020most recent commit 3 years ago
Riboraptor ⭐ 9
Tool for ribo-seq analysis
total releases 2latest release April 27, 2018most recent commit 3 years ago
Popular Data Processing Categories
Jupyter Notebook
Dataset
Sql
Validation
Pipeline
Translation
Data Science
Classification
Transaction
Scraper
Categories
Privacy | About | Terms | Follow Us On Twitter

Downloads, Dependent Repos, Dependent Packages, Total Releases, Latest Releases data powered by Libraries.io.

Copyright 2018-2024 Awesome Open Source.  All rights reserved.