Biocluster Mirrors

Application	Installed Versions	Description
alphafold-db	20210917 20220118 20230405	Alphafold Databases
BUSCO-db	4	Based on evolutionarily-informed expectations of gene content of near-universal single-copy orthologs, BUSCO metric is complementary to technical metrics like N50.
card-prevalence	3.0.6	November 2019 release - 85 pathogens, 116914 resistomes, and 182532 AMR allele sequences based on sequence data acquired from NCBI on July 31, 2019, analyzed using RGI 5.0.0 (DIAMOND homolog detection) and CARD 3.0.7. Includes pre-compiled k-mer classifier data for pathogen-of-origin prediction.
checkm-db	20150116	CheckM Database
checkm2-db	20230511	CheckM2 Database
chocophlan	0.1.1
clusterblast	20170105
ena	20230511	The European Nucleotide Archive (ENA) captures and presents information relating to experimental workflows that are based around nucleotide sequencing.
funannotate-db	20220428	funannotate is a pipeline for genome annotation (built specifically for fungi, but will also work with higher eukaryotes). Installation, usage, and more information can be found at http://funannotate.readthedocs.io
gatkbundle	20191118	he GATK resource bundle is a collection of standard files for working with human resequencing data with the GATK. We provide several versions of the bundle corresponding to the various reference builds,
genbank	250	GenBank ® is the NIH genetic sequence database, an annotated collection of all publicly available DNA sequences
gtdb	207 214	GENOME TAXONOMY DATABASE
humann-db	201901b	Databases for HUMAnN
interpro	68.0	InterPro provides functional analysis of proteins by classifying them into families and predicting domains and important sites.
KneadData-db	20230405	Databases for KneadData
kraken2-db	20220327 20230314	Kraken 2 is a system for assigning taxonomic labels to short DNA sequences, usually obtained through metagenomic studies.
ncbi-blastdb	20190808 20201212 20220318 20230124	BLAST search pages under the Basic BLAST section of the NCBI BLAST home page(http://blast.ncbi.nlm.nih.gov/) use a standard set of BLAST databases for nucleotide, protein, and translated BLAST searches.
pfam	32.0 35.0	The Pfam database is a large collection of protein families, each represented by multiple sequence alignments and hidden Markov models (HMMs)
pgap-db	2021-07-01.build5508
refseq-db	211	The Reference Sequence (RefSeq) collection provides a comprehensive, integrated, non-redundant, well-annotated set of sequences, including genomic DNA, transcripts, and proteins.
silva	138.1	SILVA provides comprehensive, quality checked and regularly updated datasets of aligned small (16S/18S, SSU) and large subunit (23S/28S, LSU) ribosomal RNA (rRNA) sequences for all three domains of life (Bacteria, Archaea and Eukarya).
uniprot	2018_04 2020_06 2021_02 2022_05	The mission of UniProt is to provide the scientific community with a comprehensive, high-quality and freely accessible resource of protein sequence and functional information.