samtools sort

Question

[Srujana]

Hello,

I want to sort my BAM files to give as input for featureCounts, but i am not sure whether to sort it by name or postion. which format will be appropriate.

Answer 1

[ATpoint]

featureCounts will sort paired-end data as it needs it internally, you don't strictly need to do it upfront. If you want then by name.

[Srujana]

so, should i just submit the unsorted BAM files to featureCounts?

[ATpoint]

yes, that's what I am saying