rnnh / bioinfo-notebookView external linksLinks
š¬ Bioinformatics Notebook. Scripts for bioinformatics pipelines, with quick start guides for programs and video demonstrations.
ā203Nov 12, 2020Updated 5 years ago
Alternatives and similar repositories for bioinfo-notebook
Users that are interested in bioinfo-notebook are comparing it to the libraries listed below
Sorting:
- Scripts for Hill et al. (2022) doi:10.1093/molbev/msac085 š£ā11Apr 28, 2023Updated 2 years ago
- Plot genome alignment figure using progressiveMauve & genoPlotRā22Aug 5, 2022Updated 3 years ago
- R interface to genome annotation files and the UCSC genome browserā35Dec 25, 2025Updated last month
- Bioinformatics analysis scripts, workflows, general code examplesā55Feb 19, 2021Updated 4 years ago
- A nextflow pipeline for analysing expression and splicing in RNA seq data from rare disease patientā18Nov 14, 2025Updated 3 months ago
- Various bioinformatics tutorialsā61Sep 22, 2023Updated 2 years ago
- HemTools: a collection of NGS pipelines and bioinformatic analysesā74Dec 18, 2025Updated last month
- Various scripts that I have created that are useful for genome annotation (repeats & proteins)ā16Feb 21, 2022Updated 3 years ago
- A toolkit to calculate polygenic scores using PLINK2, PRS-CS, RapidoPGS, or PRSice2.ā15Aug 16, 2024Updated last year
- some useful scripts for working with genomics and sequencing dataā17Oct 31, 2019Updated 6 years ago
- Repositoryā10Oct 23, 2024Updated last year
- ā19Mar 11, 2024Updated last year
- This is the official development repository for BaseVar, which call variants for large-scale ultra low-pass (<1.0x) WGS data, especially ā¦ā27Jul 28, 2025Updated 6 months ago
- Analysis pipelines for genomic sequencing dataā73Feb 3, 2026Updated last week
- ā18Apr 18, 2024Updated last year
- RNAseq analysis with Hisat2, stringtie, and ballgownā17Aug 9, 2019Updated 6 years ago
- ā12Jun 12, 2023Updated 2 years ago
- Analysis of snRNA-seq2 data coming from 3 months old mouse liver, dissecting the influence ploidy has on gene expression.ā13Dec 6, 2021Updated 4 years ago
- Cool Bioinformatics Scriptsā12May 21, 2024Updated last year
- Code used to process and analyze structural variants and short tandem repeat variants profiled in 719 deeply sequenced whole genomes as pā¦ā11Jun 25, 2019Updated 6 years ago
- Work from the book 'Advanced Python for Biologists'ā12Sep 12, 2018Updated 7 years ago
- scripts used for processing and analyzing data in the article.ā13Oct 31, 2019Updated 6 years ago
- Exercises for training scientists to perform some RNA-seq analyses.ā11Oct 7, 2019Updated 6 years ago
- A simple RNA-Seq differential gene expression pipeline using Nextflowā101Aug 6, 2025Updated 6 months ago
- minimal example implementations for bioinformatics workflow managersā280Oct 27, 2021Updated 4 years ago
- This repository contains course materials from JAX-BD2K workshop.ā32May 14, 2019Updated 6 years ago
- Instructions and helpful R code for Running GEMMA and GAPITā13Sep 14, 2017Updated 8 years ago
- Readmeā10Mar 15, 2020Updated 5 years ago
- Bacterial typing pipeline for clinical NGS data. Written in NextFlow, Python & Bash.ā12Feb 6, 2026Updated last week
- Open source tools and papers for structural variant analysis.ā12Feb 24, 2019Updated 6 years ago
- Workflow for viral analysis guided by referenceā17Feb 4, 2026Updated last week
- De novo lncRNA discovery pipeline, re-write of PLAR in shell and awkā10Aug 2, 2023Updated 2 years ago
- A web-browser app to visualise, interpret and prioritise genomic/transcriptomic structural variations (SVs) of multiple samples.ā13Oct 7, 2025Updated 4 months ago
- Curated list of resources for variant prioritizationā12Nov 18, 2025Updated 2 months ago
- Functional code templates for the Star Protocols paper describing consolidated WES variant calling with 3 callersā10Oct 18, 2024Updated last year
- Example jobs for popular applications on HCC clusters.ā20Updated this week
- ā10Feb 25, 2024Updated last year
- Python Scripts for Bioinformaticsā15Apr 24, 2024Updated last year
- Teaching materials for 6-7th March 2018 delivery of introductory bioinformatics training course for IBioIC.ā20Mar 12, 2018Updated 7 years ago