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Hello,
I ran STAR version 2.6.1.a
When I try to run STAR-Fusion 1.5.0 with the Junction file using Docker, I have this error :
CMD: mkdir -p /data/Documents//_starF_checkpoints
CMD: mkdir -…
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Attempted to run function 7:
$LRTK WGS -SI $Sinfo -OD $OUTDIR -DB $DATABASE -RG "@RG\tID:Example\tSM:Example" -T 32
After a number of hours, it eventually fails like this:
python /home/bmatthews/…
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First run of mof-search querying ARGannot_r3.nonamb against the 661K HQ indexes without any error done! We used 1 thread for COBS and allowed at most 4 decompression jobs to run simultaneously. Perfo…
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I've finished the initial version of
https://github.com/SACGF/cdot
Need to rewrite the gene / transcript annotation loader to use this
working in branch "cdot_genes"
Also need to change this doco…
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Hello,Professor,
I want to align one genome (A) to another genome (B). I have index the A genome and devided B genome into each sequence. And then I in parallel run the determining substitution and…
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Here are a few ideas from @amwenger on improving the display of methylation from long reads:
If it would help, I would be interested to contribute ideas on how to process and view methylation data …
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Hi, I was trying to run tandem_genotypes to detect tandem repeats on my ONT data. But I have some questions when preparing a genome. I see there are two options in this step —— prepare a genome with o…
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Hello,
I am running gubbins with an iqtree:
_run_gubbins.py -s alignment.aln.treefile -t iqtree --bootstrap 1000 --transfer-bootstrap --verbose alignment.aln -c 10_
The execution is blocked aft…
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I'm trying to use gather-by-contig.py to decontaminate yet another nematode genome assembly. It should sort of work with sourmash 2.2.0, but that version of sourmash is not capable of running gather-…
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Hi all*,
We've done a selection experiment where we started with two different strains of _E. coli_. We now want to find out which strain won, if the winner gained DNA from the loser and if there a…