Adrija Kalvisa

icon company University of Copenhagen icon location DK-2200 Copenhagen N icon location Bioinformatics Specialist at Genomics Platform, The NNF Center for Stem Cell Medicine (reNEW) and NNF Center for Protein Reaearch (CPR)

Results 4 comments of Adrija Kalvisa

question: how to test two region sets for differential enrichment with buildRestrictedUniverse?

Thanks, Is this the correct way to use it? ```r # get the example data: dbPath = system.file("extdata", "hg19", package="LOLA") regionDB = loadRegionDB(dbLocation=dbPath) data("sample_universe", package="LOLA") data("sample_input", package="LOLA") getRegionSet(regionDB, collections="ucsc_example", filenames="vistaEnhancers.bed")...

Ambiguous sampleSheet.csv structure

Hi Gian, did you first try to run the pipeline in test mode to figure out if this is a pipeline issue or a samplesheet issue? ```{bash} nextflow run nf-core/demultiplex...

Remove confusing language for sample sheets (related to Issue #98)

Hi all, I did an attempt of clarifying the usage instructions in regard to the confusing samplesheet language. I propose the following: use 'samplesheet.csv' ("the one samplesheet to rule them...

samplesheet input is not detecting entire values in sample column

> Could anyone provide an updated workable samplesheet.csv example? Really confused now. @CathyXD If you add a random number after the last underscore (i.e., a suffix for each sample name:...