Can I sort my bam files with Picard MergeSamFiles?
Hi!
I noticed this in the picard MergeSamFiles help:
–SORT_ORDER,-SO:SortOrder Sort order of output file Default value: coordinate. Possible values: {unsorted,
queryname, coordinate, duplicate, unknown}
Does this mean that it is unnecessary to use picard SortSam before? can MergeSamFiles do the same job?
if so, is it faster to do the sorting together with merging in MergeSamFiles or is it better to do run Sortsam first?
thanks in advance!
best / Jonas
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