- Madison, WI
- @raufs.bsky.social
- @rauf@mstdn.science
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skDER Public
skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes to select representatives for comparative genomics and metagenomics.
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zol Public
Forked from Kalan-Lab/zolPython BSD 3-Clause "New" or "Revised" License UpdatedDec 3, 2024 -
bioconda-recipes Public
Forked from bioconda/bioconda-recipesConda recipes for the bioconda channel.
Shell MIT License UpdatedNov 19, 2024 -
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codoff Public
Forked from Kalan-Lab/codoffcodoff: a program to measure the irregularity of the codon usage for a single genomic region (e.g. a BGC, phage, etc.) relative to the full genome.
Python BSD 3-Clause "New" or "Revised" License UpdatedJul 31, 2024 -
gtdb_gca_to_taxa_mappings Public
Directory with GTDB GCA accession to taxonomy mappings used by various programs.
Creative Commons Attribution 4.0 International UpdatedMay 9, 2024 -
lsaBGC Public
Forked from Kalan-Lab/lsaBGClsaBGC - Lineage Specific Analysis of Biosynthetic Gene Clusters
Python BSD 3-Clause "New" or "Revised" License UpdatedMay 1, 2024 -
ConSequences Public
Forked from broadinstitute/ConSequencesSuite to delineate contiguous and conserved sequences from assemblies and search for their presence in raw sequencing data.
Python BSD 3-Clause "New" or "Revised" License UpdatedJul 13, 2023 -
OrthoFinder Public
Forked from davidemms/OrthoFinderPhylogenetic orthology inference for comparative genomics
Python GNU General Public License v3.0 UpdatedJun 1, 2023 -
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minima Public
Forked from jekyll/minimaMinima is a one-size-fits-all Jekyll theme for writers.
SCSS MIT License UpdatedDec 29, 2020 -
seQuoia Public
Forked from broadinstitute/seQuoiaA framework for diverse omics workflows, primarily focused on QC, processing and analysis of bacterial genomic sequencing sets.
Python GNU General Public License v3.0 UpdatedDec 22, 2020 -
Rotation-in-Anantharaman-Lab Public
Programs developed for rotation in the Anantharaman lab, includes MetaDownSampler.py - which takes in a metagenome assembly and a BAM file containing self/reflexive alignment of reads to the assemb…
Python MIT License UpdatedSep 30, 2020 -
PerMutation Public
Forked from broadinstitute/PerMutationCode and programs developed for Tn-Seq analysis of E. faecalis MMH594.
Python BSD 3-Clause "New" or "Revised" License UpdatedSep 14, 2020 -
genomes-MAGs-database Public
Forked from elizabethmcd/genomes-MAGs-databaseCreation of a database of Genbank genomes including isolate reference genomes and MAGs, and parallelizing 1000s of genome searches for a specific marker
Python UpdatedApr 28, 2020 -
Admixture Public
Forked from jacahill/AdmixtureC++ GNU General Public License v3.0 UpdatedFeb 13, 2020