398 Open source projects that are alternatives of or similar to Decontam

Yet Another Chimeric Read Detector

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Robust and efficient workflows using a simple language agnostic approach

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GO enrichment with python -- pandas meets networkx

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compacted de Bruijn graph construction in low memory

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Emperor a tool for the analysis and visualization of large microbial ecology datasets

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EDAM is an ontology of bioinformatics types of data including identifiers, data formats, operations and topics.

Tools and databases for analyzing HLA and VDJ genes.

Solutions to assignments of Coursera Specializations - Deep learning, Machine learning, Algorithms & Data Structures, Image Processing and Python For Everybody

Official code repository for GATK versions 4 and up

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

Universal Transcript Archive: comprehensive genome-transcript alignments; multiple transcript sources, versions, and alignment methods; available as a docker image

Global Biotic Interactions provides access to existing species interaction datasets

Exact Tandem Repeat Finder (not a TRF replacement)

Bayesian genotyper for structural variants

Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)

Characterization of Germline variants

An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)

Structural variant toolkit for VCFs

R scripts to reproduce analyses in our paper comparing clustering methods for high-dimensional cytometry data

Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins

Randomly subsample sequencing reads to a specified coverage

Biological sequences for the julia language

Parser and database to index the terpene profile of different strains of Cannabis from online databases

A curated list of awesome Bioinformatics libraries and software.

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Conda recipes for the bioconda channel.

A fast whole-genome aligner based on de Bruijn graphs

LAMBDA – the Local Aligner for Massive Biological DatA