569 Open source projects that are alternatives of or similar to Bowtie

Unsupervised domain adaptation method for relation extraction

Snakemake-based workflow for detecting structural variants in WGS data

Fast and flexible ORF finder

课题组每周研讨会

A curated list of awesome Bioinformatics libraries and software.

🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment

An ultra-sensitive and precise tool for characterizing T cell CDR3 sequences in TCR-seq and RNA-seq data.

BioGrakn Knowledge Graph

📓Notebook of Climente-González et al. (2017), The Functional Impact of Alternative Splicing in Cancer.

A lightweight immune repertoire browser

A Practical and Efficient NCBI Taxonomy Toolkit

Versatile open-source tool for microbiome analysis

Dynamic Kernel Matching (DKM) for Classifying Data with Non-conforming Features

MMseqs2: ultra fast and sensitive search and clustering suite

Workflow Description Language - Specification and Implementations

🐛 How to use CENTIPEDE to determine if a transcription factor is bound.

UNCURL is a tool for single cell RNA-seq data analysis.

WebGL Heatmap Viewer for Big Data and Bioinformatics

SortMeRNA: next-generation sequence filtering and alignment tool

Version 5 of the CAFE phylogenetics software

A full spaCy pipeline and models for scientific/biomedical documents.

Next generation sequencing reads de novo assembler.

code for reading and processing Allen Institute for Brain Science data

A pipelining tool to automate and standardise bioinformatics analyses on cluster environments.

d3 library to build circular graphs

Post-analysis of immune repertoire sequencing data

Bioinformatics containers

🎯 Human transcription factor target genes.

🐣 locally query the ncbi taxonomy

Ploidy agnostic phasing pipeline and algorithm

Simulate genealogical trees and genomic sequence data using population genetic models

MetaOmGraph: a workbench for interactive exploratory data analysis of large expression datasets

Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model

Protein Graph Library

echt rapid variant annotation and filtering

MTBseq is an automated pipeline for mapping, variant calling and detection of resistance mediating and phylogenetic variants from illumina whole genome sequence data of Mycobacterium tuberculosis complex isolates.

Fast & accurate alignment of barcoded short-reads

A cross-platform command-line tool for executing jobs in parallel

Metadata and website for the Open Bio Ontologies Foundry Ontology Registry

Python library to handle Gene Ontology (GO) terms

(No maintenance) Detect gene fusion directly from raw fastq files

Open source Java library for computational proteomics

C++ library and cmdline tools for parsing and manipulating VCF files

Bioinformatics Workbook repository

Tools for working with SAM/BAM data

An interactive web portal for exploring immuno-oncology data

A Suite of Packages for Analysis of Big Genomic Data

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

Streamlining SLAM-seq analysis with ultra-high sensitivity

highly-efficient & lightweight mutation signature matrix aggregation

An R package for reproducible and automated ADMIXTOOLS analyses

Structural variant toolkit for VCFs

Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

Script to automatically create and run IGV snapshot batchscripts

Signal-level algorithms for MinION data

Conda recipes for the bioconda channel.

Plant image analysis using OpenCV

A Deep Learning Toolkit for DTI, Drug Property, PPI, DDI, Protein Function Prediction (Bioinformatics)

Cutadapt removes adapter sequences from sequencing reads

Pan-genome wide association studies