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| author | Justin Bedo <cu@cua0.org> | 2019-03-06 13:35:41 +1100 |
|---|---|---|
| committer | Justin Bedo <cu@cua0.org> | 2019-03-06 13:35:41 +1100 |
| commit | d52ef1a0189015ea463628391e8877bc0c1d11a5 (patch) | |
| tree | dce6e234f6b31785bd049acadf01473df60f3b3f | |
| parent | 8fa9b007544a37b2674a2eb87978652e14fbd2b3 (diff) | |
api doc: init fastqc
| -rw-r--r-- | doc/tools-doc.nix | 1 | ||||
| -rw-r--r-- | doc/tools.xml | 1 | ||||
| -rw-r--r-- | tools/fastqc.nix | 4 |
3 files changed, 6 insertions, 0 deletions
diff --git a/doc/tools-doc.nix b/doc/tools-doc.nix index 5ee8e22..f52f6ad 100644 --- a/doc/tools-doc.nix +++ b/doc/tools-doc.nix @@ -29,6 +29,7 @@ stage { docgen bwa 'BWA aligner' docgen cnvkit 'CNVkit CNV caller' docgen facets 'Facets CNV caller' + docgen fastqc 'FastQC quality control' docgen strelka 'Strelka2 variant caller' mkdir $out diff --git a/doc/tools.xml b/doc/tools.xml index 33a053b..2592b48 100644 --- a/doc/tools.xml +++ b/doc/tools.xml @@ -13,6 +13,7 @@ <xi:include href="bwa.xml" /> <xi:include href="cnvkit.xml" /> <xi:include href="facets.xml" /> + <xi:include href="fastqc.xml" /> <xi:include href="strelka.xml" /> </section> </book> diff --git a/tools/fastqc.nix b/tools/fastqc.nix index 5632958..6279682 100644 --- a/tools/fastqc.nix +++ b/tools/fastqc.nix @@ -4,5 +4,9 @@ with bionix; { fastqc = pkgs.callPackage ./fastqc-app.nix {}; + + /* QC check + Type: check :: {...} -> input :: fastq -> report + */ check = callBionixE ./fastqc-check.nix; } |