bioinformatics
Repositories (1466)
Genotype Calling with Uncertainty from Sequencing Data in Polyploids 🍌🍓🥔🍠🥝
♥ Essential Functions for DNA Manipulation
:bar_chart: Gene expression in neuroexpresso database
Deep Learning Based Tumor Type Classification Using Gene Expression Data
UCSF BMI219 Deep Learning (2017), Coding example (Prediction of protein folding with RNN and CNN)
gTaxon - a fast cross-platform NCBI taxonomy data querying (gi2taxid, taxid2taxon, name2taxid, LCA) tool, with cmd client and REST API server for both...
Deep learning to solve RNA design puzzles
DOM Text Based Multiple Sequence Alignment Library
Mapping-free software for fishing relevant reads in an RNA-Seq sample
Consensus calling (or "reference assisted assembly"), chiefly of ancient mitochondria
parseR: Pipeline for rna-seq analysis in R
Seave is a web platform that enables genetic variants to be easily filtered and annotated with in silico pathogenicity prediction scores and annotatio...
Automatically calculate phylogenetic trees from bacterial core genes
Reads the output from CLI help commands, and generates machine readable schemas (CWL etc)
🍊🔬 Bioinformatics add-on for Orange3
A prediction model for differential gene expression (DE) based on genome-wide regulatory interactions
Core library and basic plug-ins for the Amyris Genotype Specification Language (GSL) compiler.
Bioinformatics workflows developed for and used on the St. Jude Cloud project.
Genotyping of segregating mobile elements insertions
RNF framework for NGS: simulation of reads, evaluation of mappers, conversion of RNF-compliant data.
Streamable FASTA parser.
Webapp for design DNA primers for miRNA qPCR process
Nomie Documentation Repo for docs.nomie.io
A web application to visualize and edit the pathway models represented by SBGN Process Description Notation
Read HOMER motif analysis output in R.
A suite of unique bioinformatics tools for the brave explorer.
SISTR (Salmonella In Silico Typing Resource) command-line tool
SigProfilerSimulator allows realistic simulations of mutational patterns and mutational signatures in cancer genomes. The tool can be used to simulate...
Healthcare-Researcher-Connector Package: Federated Learning tool for bridging the gap between Healthcare providers and researchers
R/Pharma Conference 2020. Repository for the workshop "Artificial Neural Networks in R with Keras and TensorFlow" by Leon Eyrich Jessen
Deep neural networks implemented in TensorFlow & Python for predicting whether transcription factors will bind to given DNA sequences
AWS lambda S3 + rust-htslib: A serverless bioinformatics example
A deep learning based bioinformatics project on epigenetics in Type 2 Diabetes.
<<Managing Your Biological Data with Python>> wirtten in Python 3
GMQL - GenoMetric Query Language
Natural Product Discovery tools -- a toolkit containing various pipelines for in silico analysis of natural product mass spectrometry data
Rmarkdown / compiled html files for human reprogramming dataset analysis
Functional Analysis of Metagenomes by Likelihood Inference
Rust implmentation of VCF parser
RNAlien - unsupervised RNA family model construction
:stars: Easily download genomes and build BLAST/Bowtie indexes in Python
A job submitter for Portable Encapsulated Projects
Analysing Capture Seq Count Data
Microsoft Azure HPC & Big Compute
:chains: Construct a Physical Map from Linked Reads
Package to calculate functional similarity between genes https://biocor.llrs.dev
A comprehensive R package for microbiome analysis.
Efficient C functions to compute the summary statistics (flagstats) for sequencing read sets.
Feature extraction algorithm for genomic data