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Scaffolding contigs generated by minia

genome assembly denovo_assembly minia scaffolding written 4 months ago by Mostafa • 10 • updated 4 months ago by RamRS ♦ 20k

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Finding fragemented transcriptome

denovo_assembly transcriptome written 19 months ago by EVR • 510 • updated 19 months ago by Rohit • 1.3k

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Recent Replies

C: OMA core dumped error in a single node/machine by adrian.altenhoff • 440
ok, thanks for the update. Ubuntu14.04 should in principle work fine - we have tested OmaStandalo...
C: OMA core dumped error in a single node/machine by andrespara • 0
Thanks Adrian, we will try to reproduce the error in other machines, by the way those machines ha...
C: OMA core dumped error in a single node/machine by adrian.altenhoff • 440
Dear andre, can you reproduce this error also on a different compute node? The error indicates i...
C: Randomly sample motifs from reference sequence by jrj.healey ♦ 10k
Hmm yeah perhaps that would work. You'll have to decide what you do if it returns the same kmer i...
C: Filtering sam/bam by using CIGAR deletion sites by ag1194 • 0
With samtools view & awk tools, I cannot keep the header in my output bam. Is there a way to ...
C: vcf-merge outputting all genotypes as ./. by finswimmer ♦ 9.0k
I'm afraid this will not work. To compare variants or merge variant information is absolut mandat...
A: OMA cannot evaluate boolean by adrian.altenhoff • 440
Hi Thomas the error indicate that some parameter is undefined or alternatively the input data mi...
C: Loop over .sai files coupled with .fastq.gz by RamRS ♦ 20k
Talk to the sysadmin, I'm sure parallel is just a `module load parallel` away.
C: Randomly sample motifs from reference sequence by banerjeeshayantan • 80
Say there are 2899452029 base pairs in the reference genome. Then I can choose the starting posit...
C: Randomly sample motifs from reference sequence by jrj.healey ♦ 10k
I’m not sure I fully understand what you mean but I don’t think you can just randomly choose rang...
C: Showing samples in or out of a range central tendencies by Santosh Anand ♦ 4.4k
Hi russhh, and sorry for a late followup. I see your point and you are right. I hurriedly looked ...
C: snpEff building new database ERROR by Anastasia A. • 0
Thank you, it is the older version though and that is why I need to build my own db!

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