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Hi all,
Cactus has been running for 2 days on a single machine with 160 cores with these parameters to limit the resources:
docker run -v $(pwd):/data --rm -it quay.io/comparative-genomics-toolk…
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I tried to use cactus-hal2maf to convert hal to maf, but it can't work and I don't know the reasons!
my command has 3 steps:
1. $docker run -p 9001:22 --name hal2maf -v /gpfs/home/mays/241mammals:…
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Hi everyone! I am a noob in these Comparative Genomics stuff so excuse me if this is a obvious question.
I am working with two distal species (181 MYA) and some of your tools looks very interestin…
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**1. What were you trying to do?**
Map short reads on a graph with vg map --surject-to bam
**2. What did you want to happen?**
I'd like to add the sample & read group IDs in the BAM output
…
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I ran orthofinder on 253 genomes - the run was successful - producing the orthogroup sequences, a species tree etc.
When I checked the rooted species tree, I found that it was rooted at the wrong …
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I have naively assuming that IndexedFasta.getSequence(contig, "-", start, end) would return the reverse complement of the sequence between contig:start..end. But this is only the case if the obscure `…
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@glennhickey I've been trying out the latest code in #884 to enable requesting of accelerators from Toil, but am now getting the following error:
```
File "/projects/koneill_prj/conda/envs/cactu…
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Hi!
I have a weird error with roughly half of my samples when I run plASgraph2:
`Traceback (most recent call last):
File "/home/cs477/plASgraph2/src/plASgraph2_classify.py", line 149, in
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