Docker
For various purposes I maintain some docker containers with different purposes and uses. Here, I give a brief overview what tool and version is installed in which docker container.
The link to my docker hub (fischuu) is https://hub.docker.com/u/fischuu
| Container (latest version) | Tool | Version |
| fischuu/gbs (0.2) | FastQC | 0.11.9 |
| Trimmomatic | 0.38 | |
| Samtools | 1.9 | |
| htslib (with Tabix) | 1.8 | |
| BWA | 0.7.17 | |
| PEAR | 0.9.11 | |
| MultiQC | 1.9 | |
| Vsearch | 2.11.1 | |
| Fastx-toolkit | 0.0.14 | |
| bedtools | 2.28.0 | |
| fischuu/minimap2 (2.17-0.2) | Minimap2 | 2.17 |
| fischuu/cutadapt (2.8-0.2) | Cutadapt | 2.8 |
| fischuu/samtools (1.9-0.1) | Samtools | 1.9 |
| fischuu/bwa (0.7.17-0.1) | BWA | 0.7.17 |
| fischuu/star (2.7.3a-0.1) | STAR | 2.7.3a |
| fischuu/1kbulls (0.2) | FastQC | 0.11.9 |
| Trimmomatic | 0.38 | |
| BWA | 0.7.17 | |
| Samtools | 1.8 | |
| htslib (with Tabix) | 1.8 | |
| GATK | 3.8-1-0-gf15c1c3ef | |
| Picard | 2.18.2 | |
| R (plus some packages) | 3.6 | |
| … |