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Update docs/markdown/pipelines/pipeline_releases.md
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@WackerO
WackerO authored Nov 7, 2024
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## Pipeline releases to be used at QBiC

| Analysis type | Pipeline | Use version |
| ------------------ | --------------------------------------------------------------------- | :---------: |
| RNAseq | [nf-core/rnaseq](https://nf-co.re/rnaseq/3.12.0) | 3.12.0 |
| RNAseq DE analysis | [qbic-pipelines/rnadeseq](https://github.com/qbic-pipelines/rnadeseq) | 2.3 |
| WGS / WES | [nf-core/sarek](https://nf-co.re/sarek/3.1.2) | 3.1.2 |
| HLAtyping | [nf-core/hlatyping](https://nf-co.re/hlatyping/1.2.0) | 1.2.0 |
| 16S amplicon | [nf-core/ampliseq](https://nf-co.re/ampliseq/2.1.1) | 2.1.1 |
| Analysis type | Pipeline | Use version |
| --------------------- | ------------------------------------------------------------------------- | :---------: |
| RNAseq | [nf-core/rnaseq](https://nf-co.re/rnaseq/3.12.0) | 3.12.0 |
| RNAseq DE analysis | [qbic-pipelines/rnadeseq](https://github.com/qbic-pipelines/rnadeseq) | 2.3 |
| WGS / WES | [nf-core/sarek](https://nf-co.re/sarek/3.1.2) | 3.1.2 |
| HLAtyping | [nf-core/hlatyping](https://nf-co.re/hlatyping/1.2.0) | 1.2.0 |
| 16S amplicon | [nf-core/ampliseq](https://nf-co.re/ampliseq/2.1.1) | 2.1.1 |
| Shotgun metagenomics | [nf-core/mag](https://nf-co.re/mag/2.1.1) | 2.1.1 |
| BCR / TCR repseq | [nf-core/airrflow](https://nf-co.re/airrflow/2.4.0) | 2.4.0 |
| CAGEseq | [nf-core/cageseq](https://nf-co.re/cageseq/1.0.2) | 1.0.2 |
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