Biocluster Mirrors: Difference between revisions
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{| style= | {| style='margin: 0 auto' class='wikitable' border='1' cellpadding='1' cellspacing='1' | ||
|- | |- | ||
! | !Application | ||
! | !Installed Versions | ||
! Description | !Description | ||
|- | |- | ||
|[https://card.mcmaster.ca 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. | |||
|- | |||
|[http://huttenhower.sph.harvard.edu/humann2 chocophlan] | |||
|0.1.1 | |||
| | | | ||
|- | |- | ||
|[http://www.molgen.ua.ac.be/bioinfo/projects/clusterblast/clusterblast.htm clusterblast] | |||
| [http:// | |20170105 | ||
| | | | ||
|- | |- | ||
| | |[https://www.ebi.ac.uk/ena ena] | ||
| [[ | |Release_130 | ||
|The European Nucleotide Archive (ENA) captures and presents information relating to experimental workflows that are based around nucleotide sequencing. | |||
|- | |||
|[https://software.broadinstitute.org/gatk/download/bundle 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, | |||
|- | |||
|[https://www.ncbi.nlm.nih.gov/genbank/ genbank] | |||
|238 | |||
|GenBank ® is the NIH genetic sequence database, an annotated collection of all publicly available DNA sequences | |||
|- | |||
|[https://www.ebi.ac.uk/interpro/ interpro] | |||
|68.0 | |||
|InterPro provides functional analysis of proteins by classifying them into families and predicting domains and important sites. | |||
|- | |||
|[ftp://ftp.ncbi.nlm.nih.gov/blast/db/ ncbi-blastdb] | |||
|20170702<br>20180404<br>20190320<br>20190808 | |||
| | | | ||
|- | |- | ||
| | |[https://pfam.xfam.org/ pfam] | ||
|32.0 | |||
| | |The Pfam database is a large collection of protein families, each represented by multiple sequence alignments and hidden Markov models (HMMs) | ||
| | |- | ||
|[https://www.uniprot.org/ uniprot] | |||
|2018_04 | |||
|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. | |||
|} | |} | ||
Revision as of 13:11, 9 December 2020
| Application | Installed Versions | Description |
|---|---|---|
| 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. |
| chocophlan | 0.1.1 | |
| clusterblast | 20170105 | |
| ena | Release_130 | The European Nucleotide Archive (ENA) captures and presents information relating to experimental workflows that are based around nucleotide sequencing. |
| 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 | 238 | GenBank ® is the NIH genetic sequence database, an annotated collection of all publicly available DNA sequences |
| interpro | 68.0 | InterPro provides functional analysis of proteins by classifying them into families and predicting domains and important sites. |
| ncbi-blastdb | 20170702 20180404 20190320 20190808 |
|
| pfam | 32.0 | The Pfam database is a large collection of protein families, each represented by multiple sequence alignments and hidden Markov models (HMMs) |
| uniprot | 2018_04 | 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. |