additional challenge 2 submission

[mei-du]

Hi team, the models GTF for the H1_mix samples I submitted to Challenge 2 were the final output of the pipeline (filtered according to default parameters). However, since the unfiltered annotations were used for quantification I used this for the extra H1 and endodermal cell quantification step.

Is the submission format for H1 and endodermal cell the same as the original challenge 2 submission? And should I submit the (H1_mix) models used for quantification or the final filtered output models of the H1 and endodermal cell runs?

Thanks!

[diekhans]

Please use the same models you use for the H1_mix, as this will make it easy to compare.

A new release of the lrasp-tools has been made the handles the sample names H1 and endodermal .

[mei-du]

Yes, I have used the same models as for H1_mix, thanks.

On second thought it seems I should have submitted the unfiltered annotations in my original Challenge 2 submission as they were used for quantification, instead of the final filtered GTF and filtered counts (>= 5 reads) produced by my pipeline. But I understand that it is well past the due date.