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Dear FastV Team,
I am testing fastv for many samples related to a reference virus genome. Is it possible to combine resulting html files for a comparative view?
This feature would be very useful…
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Hi Erik
I've run Edyeet with 2 chromosomes of the same variety, but different assembly versions (related to the issue I posted for smoothxg: https://github.com/ekg/smoothxg/issues/2). I also ran wi…
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The current script craps out on Sandeep's example dataset
```
Traceback (most recent call last):
File "/usr/local/packages6/apps/gcc/5.2/bcbio/0.9.6a//tools/bin/bcbio_nextgen.py", line 4, in
_…
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GRCh37 chromosome names are pure integers (1, 2, 3, ... in oppose to chr1, chr2, chr3... in hg19/hg38), and at some point when a coverage or a fasta file is read into a dataframe, they get automatical…
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Hi,
We ran `HISAT2` (2.0.4) on a 422 sample dataset against hg19, then against hg38. Then using `featureCounts` we built some count matrices and analyzed them for differential expression and got ve…
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So I tried to group the last three Nextera LMP datasets into one group as proposed in https://github.com/TGAC/KAT/issues/98 but hit an error:
```
$ kat comp -t 24 -n -o PE2016_vs_PE2017_MP2016_vs_MP…
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Please help with this error: ValueError: The data contains non-finite values.
Here are some details:
TOBIAS: tobias/v0.16.1-ab66886
Platform: ubuntu 22.04 server
These two peaks can be succ…
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as @natir suggest, it's a bad idea, to have one folder for genomes.
Create from the Menu : Genom > open genom, Annotation > open annotation
dridk updated
8 years ago
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Hi,
I would like to use tamgram to identify the location of transposable elements in Drosophila, however when I run tangram_scan I get a segmentation fault. I suspect that tangram_bam is not working…
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Hi
I have a question in regards to how VG handles repeat regions.
My genome is around 80% repeats, based on some papers I've read and my results with Repeat Masker.
I'm working with a 20 geno…