Vahid Akbari

icon company BC Cancer and University of British Columbia icon location Vancouver icon location Postdoctoral Fellow, BC Cancer & University of British Columbia

Results 6 issues of Vahid Akbari

Instruction about mod_mapping format

5 comment

Hi @marcus1487 , It seems that the bam file from mod_mapping output does not contain the actual sequence of the read, instead, the actual sequence of the read is replaced...

question

Can I use Strelka for 10X genomics data?

Hi @pkrusche , @ctsa and @mkallberg I was wondering if Strelka is applicable to 10X genomics libraries? Thanks, Vahid

Multi_read Fast5s

2 comment

Hi, Is there any possibility that you update DeepSignal to accepts multi-read fast5 files? Because, when the number of samples is high, it is painful to convert multi-read files to...

enhancement

Multiple GPU device

2 comment

Hi @marcus1487 , I was wondering is it possible to specify multiple GPU devices for Remora during training? like --device 0 1 2 Thanks, Vahid

Do we need albacor based call fast5s at all steps?

Hi @mitenjain and @ArtRand , This might be a silly question, bu I was wondering do we need albacore fast5 base called files or they just needed for the extract...

Guppy basecalled FAST5 files

2 comment

Hi @ArtRand and @mitenjain , I have FAST5 files base called by guppy. Does signal align accepts guppy_base called fast5 files? or is it going to accept guppy base called...