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A curated collection of automated research tools, covering literature search, paper reading, experiment management, and code generation to help researchers accelerate their workflow.

A computational method designed to identify and quantify IPA sites via the examination of contextual sequence patterns and RNA-seq reads alignment.

A curated list of awesome Bioinformatics libraries and software.

🔬 Path to a free self-taught education in Bioinformatics!

tools for working with Bisulfite Sequencing data while preserving reads intrinsic dependencies

Java utilities for Bioinformatics

A comprehensive tutorial about GWAS and PRS

GraffiTE is a pipeline that finds polymorphic transposable elements in genome assemblies and/or long reads, and genotypes the discovered polymorphisms in read sets using genome-graphs.

MEGAnE

Non-parametric, asymptotic P-value computation for multivariate linear models

released version of APAIQ

xQTLbiolinks: an R package for integrative analysis with xQTL data

Estimation of Promoter Activity from RNA-Seq data

Web application to explore the Sequence Read Archive.

RNAnue

Scripts for various molecular quantitative trait locus (xQTL) analysis.

A genomic k-mer counter (and sequence utility) with nice features.

Comprehensive analysis of small RNA sequencing data

Aligns short reads using dynamic seed size with strobemers

Long-read splice alignment with high accuracy

Red-C data processing

The Fast Cross-Platform Package Manager

Tools for analyzing DNA methylation data

Perl, R, Python, and Bash Shell source codes for high-throughput sequencing (the 2nd, 3rd, and 4th generation sequencing for DNA, RNA, and Protein) data analysis by integrating lots of open-source …

molecular quantitative trait methylation (QTM) analysis

An automated sQTL mapping pipeline using Nextflow