Confuse about the Input

de-Boer-Lab / BrockmanR

Brockman R package for analyzing k-mer representations of chromatin data

GNU General Public License v3.0

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Confuse about the Input #1

Open wbaopaul opened 5 years ago

wbaopaul commented 5 years ago

I am not clear about what kind of input files I should provided: A cell by peak matrix plus genome sequence? Thanks.

Carldeboer commented 5 years ago

Sorry for the late reply! The expected input is a matrix of kmers (rows) vs samples (columns) with the observed frequencies of each k-mer adjacent to the read mapping locations for each sample. This is what is created by the inputKMerFreqs function after having run the Brockman command line tool, which create k-mer frequency vectors for each sample.