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Martin Larralde / PyFastANI
MIT LicenseCython bindings and Python interface to FastANI, a method for fast whole-genome similarity estimation.
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Martin Larralde / NAFcodec
MIT LicenseRust coder/decoder for Nucleotide Archival Format (NAF) files.
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Martin Larralde / Peptides.py
GNU General Public License v3.0 onlyPhysicochemical properties and indices for amino-acid sequences (ported from R).
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Martin Larralde / Mini 3Di
GNU General Public License v3.0 onlyA NumPy port of the foldseek code for encoding protein structures to 3di.
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Martin Larralde / PytrimAl
GNU General Public License v3.0 onlyCython bindings and Python interface to trimAl, a tool for automated alignment trimming.
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Martin Larralde / PyFAMSA
GNU General Public License v3.0 onlyCython bindings and Python interface to FAMSA, an algorithm for ultra-scale multiple sequence alignments.
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Martin Larralde / PySWRD
GNU General Public License v3.0 onlyCython bindings and Python interface to SWORD (Smith Waterman On Reduced Database), a method for fast database search.
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Martin Larralde / GECCO
GNU General Public License v3.0 onlyGene Clusters with Conditional Random Fields.
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Martin Larralde / PyTantan
GNU General Public License v3.0 onlyCython bindings and Python interface to Tantan, a fast method for identifying repeats in DNA and protein sequences.
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This repository gather all genomics data and analysis we performed on Zbtb24 in mouse embryonic stem cells.
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Sam Nooij / Pacbio Assembly Benchmark
BSD 3-Clause "New" or "Revised" LicenseUpdated -
Sam Nooij / metagenomics-preprocessing
BSD 2-Clause "Simplified" LicenseA Snakemake workflow to automatically handle metagenomics preprocessing (i.e. host removal and low-quality trimming).
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pongs / pongs-translation
MIT LicenseCode and tables for translation from variants to haplotypes.
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Pipeline to pre-process vcf and gvcf files and submit them to varda.lumc.nl
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