These are chat archives for dereneaton/ipyrad
Dear ipyRAD Community,
I believe I have a special type of data. I have been merging GBS and Re-Seq data and I have everything already mapped to a REF genome, hence BAM files. Thus, could I ask if it would be possible somehow to skip and demultiplexing, clustering and mapping steps and only use ipyRAD to output the found haplotypes? Would that be a conceivable feature?
Many thanks in advance, George.
ref_build_and_muscle_chunkby hand for each sample, but this would be an
advanced end users onlykind of scenario, not for the feint of heart.
-fflag, it will skip the samples that have already finished and continue running just the unfinished samples.