536 Open source projects that are alternatives of or similar to tibanna

A curated list of bioinformatics bench-marking papers and resources.

Tools to process and analyze deep sequencing data.

Close assembly gaps using long-reads at high accuracy.

MMseqs2: ultra fast and sensitive search and clustering suite

Python library to parse, format, validate, normalize, and map sequence variants. `pip install hgvs`

d3 library to build circular graphs

A Snakemake workflow for differential expression analysis of RNA-seq data with Kallisto and Sleuth.

Bioinformatics containers

Hifiasm: a haplotype-resolved assembler for accurate Hifi reads

Tools for working with SAM/BAM data

Improving genome bins through the combination of different binning programs

Python library to facilitate genome assembly, annotation, and comparative genomics

Bayesian haplotype-based mutation calling

A fast and sensitive gapped read aligner

A R framework for pipeline benchmarking, with application to single-cell RNAseq

Plant image analysis using OpenCV

A comprehensive library for computational molecular biology

Ultra-fast and memory-efficient (meta-)genome assembler

Rapid builds of small Conda-based containers using micromamba.

A scikit-learn compatible library for graph kernels

Fast multi-line FASTA/Q reader in several programming languages

Open-source bioinformatics components for Dash

Project Manager for NGS data analysis

Interactive network visualization in Python and Dash, powered by Cytoscape.js

Efficient pythonic random access to fasta subsequences

Serverless Telegram bot made on 4 AWS Lambda chained by AWS Step Functions. All of this written on Serverless Framework using plugins.

Lightweight, super fast C/C++ (& Python) library for sequence alignment using edit (Levenshtein) distance.

Protein-Ligand Interaction Profiler - Analyze and visualize non-covalent protein-ligand interactions in PDB files according to 📝 Salentin et al. (2015), https://www.doi.org/10.1093/nar/gkv315

Therapeutics Data Commons: Machine Learning Datasets and Tasks for Therapeutics

Snakemake based pipeline for RNA-Seq analysis

Accurate sample inference from amplicon data with single nucleotide resolution

ECG classification programs based on ML/DL methods

An analysis and visualization platform for 'omics data

Create cwl workflows by writing a simple Python script

COBRApy is a package for constraint-based modeling of metabolic networks.

Code examples of fast and simple k-mer counters for tutorial purposes

Personalized Genomics and Proteomics. Main diet: Ensembl, side dishes: SNPs

Backend for ChRIS

annotate a VCF with other VCFs/BEDs/tabixed files

A tool to circularize genome assemblies

[DEPRECATED] Bioinformatics and Computational Biology Infrastructure for Julia

Single Cell Analysis Pipelines

Example client programs for Saphetor's VarSome annotation API

HiCExplorer is a powerful and easy to use set of tools to process, normalize and visualize Hi-C data.

Real-time species-typing visualisation for nanopore data.

A workflow for creating small NGS test data sets, useful for continuous integration.

Aim to be the bioinformatics repository with more and newer packages

NGLess: NGS with less work

Classifies genes as an oncogene, tumor suppressor gene, or as a non-driver gene by using Random Forests

A workflow to build models of the European electricity system for Calliope.

GenomeTools genome analysis system.

Official code repository for GATK versions 4 and up

HTS-compatible wrapper for IgBlast V-(D)-J mapping tool

A cool place to store your Hi-C

Implementation of Neural Distance Embeddings for Biological Sequences (NeuroSEED) in PyTorch (NeurIPS 2021)

Streamlining SLAM-seq analysis with ultra-high sensitivity

pytoda - PaccMann PyTorch Dataset Classes. Read the docs: https://paccmann.github.io/paccmann_datasets/

The BridgeDb Library source code

A simple command-line tool to download data from Joint Genome Institute databases