...
External tool | Windows (64-bit) | macOS (64-bit) | Linux (64-bit) | |
---|---|---|---|---|
bedGraphToBigWigbigwig | 4 | 4 | 4 | |
Bedtoolsbedtools | 2.29.2 | 2.29.2 | 2.29.2 | |
BLAST+ | 2.10.1+ | 2.10.1+ | 2.10.1+ | |
Bowtie | 1.3.0 | 1.3.0 | 1.3.0 | |
Bowtie 2Bowtie2 | 2.4.2 | 2.4.2 | 2.4.2 | |
Burrows-Wheeler Aligner (BWA) | 0.7.17-r1188 | 0.7.17-r1188 | 0.7.17-r1188 | |
CAP3 | 12/21/07 | 12/21/07 | 10/15/07 | |
Cistrome | CEAS Tools (need Rscript) | 0.9.9.7 | 0.9.9.7 | 0.9.9.7 |
ConservationPlot conservation_plot (need Rscript) | 0.1 | 0.1 | 0.1 | |
Conduct GO go_analysis (need Rscript) | 1.0.1 | 1.0.1 | 1.0.1 | |
MACS | 1.4.2 | 1.4.2 | 1.4.2 | |
peak2gene | 1.02 | 1.02 | 1.02 | |
SeqPos seqpos (need Rscript) | 2.0 | 2.0 | 2.0 | |
CLARK | N/A | 1.2.4 (UGENE-customized) | 1.2.4 (UGENE-customized) | |
Clustal OmegaClustalO | 1.2.2 | 1.2.3 | 1.2.4 | |
ClustalW | 2.1 | 2.1 | 2.1 | |
Cufflinks | N/A | 2.0.2 | 2.0.2 | |
cutadapt | 1.7.1 | 1.7.1 | 1.7.1 | |
DIAMOND | N/A | 0.9.22 | 0.9.22 | |
FastQC | 0.11.9 | 0.11.9 | 0.11.9 | |
HMMER | 3.3.1 | 3.3.1 | 3.3.1 | |
JRE (java) | 1.8.0_192 | 1.8.0_192 | 1.8.0_192 | |
Kraken | N/A | 1.0 | 1.0 | |
MAFFT | 7.475 | 7.475 | 7.475 | |
MetaPhlAn2 | N/A | 2.7.7 | 2.0.0 | |
MrBayes | 3.2.3 | 3.2.3 | 3.2.3 | |
Perl | 5.24.3 | 5.18.2 | N/A | |
PhyML | 20120412 | 20120412 | 20120412 | Python|
python | python | 2.7.5 | 2.7.5 | 2.7.5 |
Bio | N/A | 1.73 | 1.73 | |
django | 1, 5, 1 | 1, 5, 1 | 1, 5, 1 | |
numpy | 1.7.1 | 1.16.0 | 1.16.0 | |
Rscript | R is not included into the External Tools Packages. | |||
SAMtools | BCFtools | 0.1.19 | 0.1.19 | 0.1.19 |
SAMtools | 0.1.19 | 0.1.19 | 0.1.19 | |
Tabix | 0.2.5 | 0.2.6 | 0.2.5 | |
vcfutils | Version not specified | Version not specified | Version not specified | |
SnpEff | 4.3i | 4.3i | 4.3i | |
SPAdes | N/A | 3.14.1 | 3.14.1 | |
Spidey | Version not specified | N/A | Version not specified | |
StringTie | N/A | 1.3.4d | 1.3.4d | |
T-Coffee | Version not specified | 11.00 | 13.44 | |
TopHat | N/A | 2.1.1 | 2.1.1 | |
Trimmomatic | Version not specified | Version not specified | 0.39 | |
vcf-consensus | Version not specified | Version not specified | 0.1.12b | |
WEVOTE | N/A | Version not specified | Version not specified |
...