Commit b0a525a2 authored by Mei's avatar Mei
Browse files

remove links to yamsvp.md

parent 0c7bc8eb
...@@ -13,7 +13,6 @@ The pipeline accepts ```.fastq & .bam``` files as input. ...@@ -13,7 +13,6 @@ The pipeline accepts ```.fastq & .bam``` files as input.
* [Metagenomics analysis](gears.md) * [Metagenomics analysis](gears.md)
* [Mapping](mapping.md) * [Mapping](mapping.md)
* [VEP annotation](toucan.md) * [VEP annotation](toucan.md)
* [Structual variant analysis](yamsvp.md)
* [CNV analysis](kopisu.md) * [CNV analysis](kopisu.md)
* <a href="http://broadinstitute.github.io/picard/" target="_blank">Picard tool suite</a> * <a href="http://broadinstitute.github.io/picard/" target="_blank">Picard tool suite</a>
* <a href="https://www.broadinstitute.org/gatk/" target="_blank">GATK tools</a>: * <a href="https://www.broadinstitute.org/gatk/" target="_blank">GATK tools</a>:
...@@ -212,9 +211,6 @@ toucan: ...@@ -212,9 +211,6 @@ toucan:
In addition to standard variant calling, Shiva also supports SV calling. In addition to standard variant calling, Shiva also supports SV calling.
One can enable this option by setting the `sv_calling` config option to `true`. One can enable this option by setting the `sv_calling` config option to `true`.
For SV calling Shiva uses the [yamsvp](yamsvp.md) as a sub-pipeline.
Please see the documentation for yamsvp.
**example config** **example config**
```yaml ```yaml
shiva: shiva:
......
Markdown is supported
0% or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment