Elton Vasconcelos

Thanks a lot! It worked with --only-assembler. Cheers, Elton

Do you mean a stringtie "t_data.ctab" output? If so, here it goes: t_id chr strand start end t_name num_exons length gene_id gene_name cov FPKM 1 211000022278090 . 488 1045 MSTRG.1.1...

Dear Kristoffer, This is to let you know that I was able to move forward setting some arbitrary readLength option of 2550 (the average of my read lengths). The curious...

Hi Kristoffer, Yes, I ended up giving up of stringtie and am now relying on NanoCount abundance.tsv files. I had to slightly edit the headers in order to get identical...

Dear Kristoffer, Just to let you know that I was able to solve that silly error, which was due to unsorted quant tables generated by NanoCount. Once putting all transcripts...

Hi Julian, Answering your question: No, all my 13 samples are completely independent from one another. In order to make the tool to load mutations faster, I've been running initial...

Hi Chris, Thanks for your prompt reply, and sorry for my late response. Long weekend over here in the UK. Below are the first 10 lines from the nanopolish-generated eventalign.txt...

Thanks for quickly replying, rhallPB! Here go my commands: $ pbalign --nproc 20 --forQuiver --byread --tmpDir tmp_pbalign input.fofn genome.fa baxh5-vs-genome.cmp.h5 $ ipdSummary.py --reference genome.fa --outfile baxh5-vs-genome.ipdSummary --numWorkers 20 -v baxh5-vs-genome.cmp.h5...

Thanks again rhaiiPB, I am running smrtanalysis 2.3.0 with pbalign 0.2.0.138342. Unfortunately, I am not able to see any "IPD" option on the pbalign --help output. If I exclude the...

Got it! Running loadPulses right now to add the IPD on the metrics, as you suggested. Optimistic to get ipdSummary working fine soon. Thanks very much, rhallPB. If any other...