Package for fetching metadata and downloading data from SRA/ENA/GEO
-
Updated
Feb 17, 2025 - Python
#
bioinformatics-pipeline
Here are 277 public repositories matching this topic...
A tool to circularize genome assemblies
bioinformatics research genomics pathogen sequencing next-generation-sequencing bioinformatics-pipeline global-health infectious-diseases
-
Updated
Apr 6, 2024 - Python
Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins
bioinformatics research genomics pathogen sequencing next-generation-sequencing bioinformatics-pipeline global-health infectious-diseases
-
Updated
Apr 5, 2025 - Python
TOGA (Tool to infer Orthologs from Genome Alignments): implements a novel paradigm to infer orthologous genes. TOGA integrates gene annotation, inferring orthologs and classifying genes as intact or lost.
-
Updated
Apr 28, 2025 - Python
Antimicrobial Resistance Identification By Assembly
bioinformatics research genomics pathogen sequencing next-generation-sequencing bioinformatics-pipeline global-health infectious-diseases
-
Updated
Oct 12, 2023 - Python
ATAC-seq and DNase-seq processing pipeline
-
Updated
Jun 21, 2022 - Python
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.
bioinformatics rna-seq snakemake pipeline reproducible-research ngs bioinformatics-pipeline chip-seq atac-seq workflows fastq sra
-
Updated
May 15, 2025 - Python
WGBS/NOMe-seq Data Processing & Differential Methylation Analysis
epigenetics bioinformatics-pipeline dna-methylation differential-methylation functional-genomics nome-seq nome-seq-data calling-dmrs
-
Updated
May 20, 2023 - Python
Analyze your RNA sequencing data without writing a single line of code
bioinformatics rna-seq gui-application bioinformatics-pipeline rnaseq transcriptomics rna-seq-analysis bioinformatics-analysis smallrna rna-seq-pipeline bioinformatics-tool smallrna-seq
-
Updated
Jun 4, 2025 - Python
A lightweight and handy variant calling pipeline generator for whole-genome sequencing (WGS) and whole exom sequencing data (WES) analysis by using GATK and Sentieon. 一个基于 GATK 和 Sentieon 的简易且全面的 WGS/WES 分析流程生成器.
bioinformatics pipeline bioinformatics-pipeline variant-calling workflow-management whole-genome-sequencing
-
Updated
May 20, 2025 - Python
AltAnalyze is a multi-functional and easy-to-use software package for automated single-cell and bulk gene and splicing analyses. Easy-to-use precompiled graphical user-interface versions available from our website.
python bam-files clustering graphical-interface pagerank bioinformatics-pipeline alternative-splicing command-line-tool splicing-quantification network-analysis pathway-analysis rna-seq-data scrna-seq-data cell-cycle cell-type-classification splicing-visualization fastq-anaysis single-cell-splicing marker-gene-analysis louvain-community-detection
-
Updated
Jul 7, 2022 - Python
A bioinformatics pipeline to analyze mtDNA from NGS data
-
Updated
Mar 5, 2024 - Python
Reproducible bioinformatics pipelines in python. Import any Unix tool/command in python.
python bioinformatics rna-seq conda bioinformatics-pipeline bioconda bioinformatics-analysis rna-seq-pipeline ncbi-sra rna-seq-workflows
-
Updated
Jun 4, 2021 - Python
Structural Bioinformatics is awesome. Throw your textbook in the garbage, light the garbage can on fire, and blend the ashes into your cold brew almond milk latte and read this.
machine-learning bioinformatics deep-learning genomics chemistry genetics cheminformatics biology protein-structure protein bioinformatics-pipeline quantum-chemistry awesome-list proteomics docking bioinformatics-analysis protein-structure-prediction genome-alignment alphafold molecular-informatics
-
Updated
May 5, 2023 - Python
HemTools: a collection of NGS pipelines and bioinformatic analyses
-
Updated
Apr 15, 2025 - Python
Plugin for PyCharm / IntelliJ IDEA Platform IDEs which adds support for Snakemake language.
-
Updated
Apr 18, 2025 - Python
A fully automated gene annotator from RNA-Seq expression data
bioinformatics rna-seq finder bioinformatics-pipeline genome-annotation protein-sequences gtf gene-models transcripts gene-annotations changepoint-detection predict-genes gene-annotation-pipeline
-
Updated
Jul 1, 2023 - Python
Portable solution to generate genome alignment chains using lastz
-
Updated
May 27, 2025 - Python
de novo virus assembler of Illumina paired reads
bioinformatics research genomics pathogen sequencing next-generation-sequencing bioinformatics-pipeline global-health infectious-diseases
-
Updated
May 17, 2021 - Python
Natural Language Search and Analysis of High Dimensional Genomic Data
bioinformatics genomics bioinformatics-pipeline bioinformatics-analysis bioinformatics-scripts bioinformatics-databases bioinformatics-algorithms genomics-search
-
Updated
May 30, 2025 - Python
Improve this page
Add a description, image, and links to the bioinformatics-pipeline topic page so that developers can more easily learn about it.
Add this topic to your repo
To associate your repository with the bioinformatics-pipeline topic, visit your repo's landing page and select "manage topics."