From ef854547b7e5db611949eb4a82d0915bdfdf15bb Mon Sep 17 00:00:00 2001 From: Sander Bollen <a.h.b.bollen@lumc.nl> Date: Thu, 28 May 2015 14:35:51 +0200 Subject: [PATCH] spelling --- docs/pipelines/mapping.md | 18 +++++++++--------- 1 file changed, 9 insertions(+), 9 deletions(-) diff --git a/docs/pipelines/mapping.md b/docs/pipelines/mapping.md index 7a8532284..ffa4b7713 100644 --- a/docs/pipelines/mapping.md +++ b/docs/pipelines/mapping.md @@ -43,15 +43,15 @@ All other values should be provided in the config. Specific config values toward | skipmarkduplicates | Boolean (optional) | Whether to skip the Picard Markduplicates step (default = False) | | skipmetrics | Boolean (optional) | Whether to skip the metrics gathering step (defualt = False) | | reference | Path (**required**) | Path to indexed fasta file to be used as reference | -| rgid | String (**required**) | Readgroup ID | -| rglb | String (**required**) | Readgroup Library | -| rgpl | String (**required**) | Readgroup Platform | -| rgpu | String (**required**) | Readgroup platform unit | -| rgsm | String (**required**) | Readgroup sample | -| rgcn | String (**required**) | Readgroup sequencing center | -| rgds | String (**required**) | Readgroup description | -| rgdt | ISO8601 date (**required**) | Readgroup sequencing date | -| rgpi | Integer (**required**) | Readgroup predicted insert size | +| rgid | String (**required**) | Read group ID | +| rglb | String (**required**) | Read group Library | +| rgpl | String (**required**) | Read group Platform | +| rgpu | String (**required**) | Read group platform unit | +| rgsm | String (**required**) | Read group sample | +| rgcn | String (**required**) | Read group sequencing center | +| rgds | String (**required**) | Read group description | +| rgdt | ISO8601 date (**required**) | Read group sequencing date | +| rgpi | Integer (**required**) | Read group predicted insert size | It is possible to provide any config value as a command line argument as well, using the `-cv` flag. E.g. `-cv reference=<path/to/reference>` would set value `reference`. -- GitLab