bioinformatics
Repositories (1438)
⚙️ Matching T-cell repertoire against a database of TCR antigen specificities
R package for benchmarking single cell analysis methods
:bar_chart: Codon usage tables in code-friendly format + Python bindings
Files and methodology pertaining to the sequencing and analysis of SARS-CoV-2, causative agent of COVID-19.
Command line tool to run batch jobs concurrently with ETL framework on AWS or other cloud computing resources
R mased batch sequence downloader, with primer development and in silico evaluation capabilities
de novo assembly of RNA-seq data using ABySS
Genome-wide imputation pipeline
Fast & accurate alignment of barcoded short-reads
Cross-platform normalization enables machine learning model training on microarray and RNA-seq data simultaneously
A Julia package to view macromolecular structures in the REPL, in a Jupyter notebook/JupyterLab or in Pluto
scripts and notes for learning
A lightweight library for working with PAF (Pairwise mApping Format) files
An R framework for phylostratigraphy
An ML Platform for storing, analyzing, and visualizing your data all in the browser.
Super high performance interactive heatmap software
My own tools code for NGS data analysis (Next Generation Sequencing)
A novel management, annotation, and machine learning framework for analyzing cancer mutations
Visualizer of CWL (Common Workflow Language) workflows for Vue
LSTM for binary DNA sequence classification
VirNet: A deep attention model for viral reads identification
SOAPdenovo-Trans, a de novo transcriptome assembler designed specifically for RNA-Seq. We evaluated its performance on transcriptome datasets from ric...
Core types and interfaces for BioJulia packages
GATK4 Best Practice Nextflow Pipeline
A pipeline for the computational evaluation of RNA-Seq data
Snakemake profile for running jobs on an LSF cluster
Python package to analyze DNA methylation data
My Self-Study Room: keep tidy and lightweight
Best practice RNA-Seq analysis pipeline for reference-based RNA-Seq analysis
lsaBGC - Lineage Specific Analysis of Biosynthetic Gene Clusters
:ribbon: A data mining suite for gene expression data.
Single Page Web Application for displaying and studying molecular models
This is the SeqWare Project's main repo.
Improving genome bins through the combination of different binning programs
To tackle the exponentially increasing throughput of Next-Generation Sequencing (NGS), most of the existing short-read aligners can be configured to f...
Assembling the cause of phenotypes and genotypes from NGS data
small rna-seq analysis package
today I learned..
A novel pipeline framework to accelerate bioinformatics analysis
The GenePattern Server web application
Accurate, resource-frugal and deterministic DNA sequence classifier.
SIMD C/C++ library for massive optimal sequence alignment (local/SW, infix, overlap, global)
MiGA: Microbial Genomes Atlas
Python API for the Interactive Tree of Life (iTOL)
Molecular informatics toolkit with a comprehensive integration of bioinformatics and cheminformatics tools for drug discovery.
Protwis is the backbone of the GPCRdb. The GPCRdb contains reference data, interactive visualisation and experiment design tools for G protein-coupled...
Bioinformatics library in Kotlin
A (very) fast program for getting statistics about a fastq file, the way I need them, written in Rust