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| External tool | Windows (64-bit) | macOS (64-bit) | Linux (64-bit) |
|---|---|---|---|
| bedGraphToBigWig | 4 | 4 | 4 |
| bedtools | 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 |
| Bowtie2 | 2.4.2 | 2.4.2 | 2.4.2 |
| BWA | 0.7.17 | 0.7.17 | 0.7.17 |
| CAP3 | 12/21/07 | 12/21/07 | 10/15/07 |
| CEAS | 0.9.9.7 | 0.9.9.7 | 0.9.9.7 |
CLARK | N/A | 1.2.4 (UGENE-customized) | 1.2.4 (UGENE-customized) |
| ClustalO | 1.2.2 | 1.2.3 | 1.2.4 |
| ClustalW | 2.1 | 2.1 | 2.1 |
| ConductGO | Version not specified | Version not specified | Version not specified |
| conservation_plot | 0.1.0 | 0.1.0 | 0.1.0 |
| Cufflinks tools | 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 |
| JRE (java) | 1.8.0 | 1.8.0_192 | 1.8.0_192 |
| HMMER | 3.3.1 | 3.3.1 | 3.3.1 |
| Kraken | N/A | 1.0 | 1.0 |
| MACS | 1.4.2 | 1.4.2 | 1.4.2 |
| MAFFT | 7.475 | 7.475 | 7.475 |
MetaPhlAn2 | N/A | 2.0.0 | 2.0.0 |
| MrBayes | 3.2.3 | 3.2.3 | 3.2.3 |
| peak2gene | 1.02 | 1.02 | 1.02 |
| perl | 5.24.3 | N/A | N/A |
| PhyML | 20120412 | 20120412 | 20120412 |
| python | 2.7.5 | 2.7.5 | 2.7.5 |
| Rscript | R is not included into the External Tools Packages. However, it may be installed using the UGENE Online Installer package. | ||
| samtools | 0.1.19 | 0.1.19 | 0.1.19 |
| SeqPos | 1.01 | 1.01 | 1.01 |
| SnpEff | 4.3i | 4.3i | 4.3i |
| SPAdes | N/A | 3.14.1 | 3.14.1 |
| Spidey | Version not specified | N/AVersion not specified | Version not specified |
| StringTie | N/A | 1.3.4d | 1.3.4d |
| T-Coffee | 8.99 | 11.00 | 13.44 |
| TopHat | N/A | 2.1.1 | 2.1.1 |
| Trimmomatic | 0.39 | 0.39 | 0.39 |
| vcftools | 0.1.12b | 0.1.12b | 0.1.12b |
| WEVOTE | N/A | Version not specified | Version not specified |
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