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| External tool | Windows (64-bit) | Windows (32-bit) | macOS (64-bit) | Linux (64-bit) | Linux (32-bit) | |
|---|---|---|---|---|---|---|
| bedGraphToBigWig | 4 | N/A | ||||
| bedtools | 2.20.1 | 2.20.1 | ||||
| BLAST | 2.2.26 | 2.2.26 | ||||
| BLAST+ | 2.2.30 | 2.2.30 | ||||
| Bowtie | 0.12.7 | 0.12.7 | ||||
| Bowtie2 | 2.1.0 | 2.0.6 | ||||
| BWA | 0.7.12 | 0.7.12 | ||||
| CAP3 | 12/21/07 | 12/21/07 | ||||
| CEAS | TODO | Version not specified | Version not specified | |||
| CLARK | N/A | N/A | ||||
| ClustalO | 1.2.1 | 1.2.1 | ||||
| ClustalW | 2.1 | 2.1 | ||||
| ConductGO | TODO | Version not specified | Version not specified | |||
| conservation_plot | TODO | Version not specified | Version not specified | |||
| Cufflinks tools | N/A | N/A | ||||
| Cutadapt | 1.7.1 | 1.7.1 | ||||
| DIAMOND | N/A | N/A | ||||
| FastQC | 0.11.2 | 0.11.2 | ||||
| JRE (java) | JRE is not included into the External Tools Packages. | |||||
| HMMER | 3.1b2 | 3.1b2 | ||||
| Kraken | N/A | N/A | ||||
| MACS | 1.4.2 | 1.4.2 | ||||
| MAFFT | 7.212 | 7.212 | ||||
| MrBayes | 3.2.3 | 3.2.3 | ||||
| peak2gene | 1.02 | 1.02 | ||||
| perl | 5.10.0.5 (32-bit) | 5.10.0.5 | ||||
| PhyML | 20120412 | 20120412 | ||||
| python | 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 | ||||
| SeqPos | TODO | Version not specified | Version not specified | |||
| SnpEff | 4.3i | 4.3i | ||||
| SPAdes | N/A | N/A | ||||
| Spidey | Version not specified | Version not specified | ||||
| StringTie | N/A | N/A | ||||
| T-Coffee | 8.99 | 8.99 | ||||
| TopHat | N/A | N/A | ||||
| Trimmomatic | 0.38 | 0.38 | ||||
| vcftools | 0.1.12b | 0.1.12b | ||||
| WEVOTE | N/A | N/A | ||||