diff --git a/mutspecFilter.xml b/mutspecFilter.xml index aebf2e8..b8daa73 100644 --- a/mutspecFilter.xml +++ b/mutspecFilter.xml @@ -47,10 +47,10 @@ - + - + @@ -63,11 +63,11 @@ **What it does** -Filter a file annotated with MutSpec-Annot tool. Variants present in public databases (dbSNP, SegDup, ESP, 1000 genome obtained from Annovar) will be removed from the input file (with frequency limits described above). +Filter a file annotated with MutSpec-Annot tool. Variants present in public databases obtained from Annovar will be removed from the input file (with frequency limits described above). .. class:: warningmark -The databases ESP and 1000 genome can be used only for human genomes +The databases ESP, 1000 genome and ExAC can be used only for human genomes -------------------------------------------------------------------------------------------------------------------------------------------------- @@ -86,6 +86,13 @@ Tab delimited text files generated by MutSpec-Annot tool. You eventually would like to filter for additional features like repeats and tandem repeats. You just need to provide the reference in vcf or bed format. +.. class:: infomark + +Reference files are available on IARC Galaxy Shared Data. +On the top panel click on "Shared Data" and select "Data Libraries". +The category "BED annotations" contains reference files for different genomes. + + -------------------------------------------------------------------------------------------------------------------------------------------------- **Output**