There are 10 repositories under genomic-data-analysis topic.
a framework for training sequence-level deep learning networks
A modular annotation tool for genomic variants
The Visualization Multitool for Molecular Epidemiology and Bioinformatics
H.E.L.E.N. (Homopolymer Encoded Long-read Error-corrector for Nanopore)
memory efficient, fast & precise taxnomomic classification system for metagenomic read mapping
RADseq Data Exploration, Manipulation and Visualization using R
Fast and precise comparison of genomes and metagenomes (in the order of terabytes) on a typical personal laptop
stackr: an R package to run stacks software pipeline
Build DeepSea training dataset from raw data
R package: Simulate Expression data from igraph network using mvtnorm (CRAN; JOSS)
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.
Shiny app for making and annotating Volcano plots
Genome Contact Map Explorer - gcMapExplorer. Visit:
genomic alignment similarity search tool
Collection of statistical scripts, image analysis workflows, data used in publications by the Misteli Lab.
The AnnSQL package enables SQL based queries on AnnData objects.
Differential Privacy Protection against MembershipInference Attack on Machine Learning for Genomic Data
Cartography of Genomic Interactions Enables Deep Analysis of Single-Cell Expression Data (Nature Communications, 2023)
An R/Bioconfuctor package for association analysis of genomic regions based on permutation tests
The Visualization Multitool for Molecular Epidemiology and Bioinformatics
iPat allows you to perform GWAS and GS with drags and clicks!
Collection of simple C scripts for parsing vcf or bam files using the htslib C library. These scripts can be used as the starting point for more complex scripts
Flujos de trabajos desarrollados y automatizados en el Intituto Nacional de Medicina Genómica para el procesamiento de datos genómicos y transcriptómicos.
JAMIRA is a reproducible Workflow for Integrative Exploration of Genomic Features of prokariotes
grur: an R package tailored for RADseq data imputations
Research into statistical distributions of genomes, proteomes and reactomes
This project implements a RAG (Retrieval-Augmented Generation) application to answer questions about phenotypes using biological and genomic data. The pipeline integrates information retrieval with response generation via language models (LLM), facilitating accurate analysis of phenotypic data.
Genestrip - Efficient read classification, filtering and k-mer counting for selected groups of species