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(copied from https://github.com/sourmash-bio/sourmash/issues/461#issuecomment-1993390314)
Hi Titus @ctb , I don't know whether I could ask the following questions related to this issue, anyway....
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Dear Developer,
I downloaded the code and tried to run it but failed with the message below:
Command line:
bash map_lariats.sh /Users/bieniaszlab/Documents/Xiao/Peng_Zhang/test_examples/5ss_mut/5…
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Hello. Currently running mac and downloaded harvesttools using conda.
When I run normal parsnp command, I get the following error:
base) > ~ % parsnp -g ~/GCF_PAO1_000006765.1_ASM676v1_genomic.gb…
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Hi,
I am working on a genome expected size is around 10g.
I just wonder is it possible to use a closely related genome as a seed for the alignment?
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### Description of the bug
As a minimal example, I am locally (on a system with 24 cores and 128 GB RAM) running joint germline with just two WES samples with this nextflow.config file
process {
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### Description of the bug
Hi, I am unable to load sentieon dnascope model using the command below.
The SENTIEONDNASCOPEMODEL points to to location of the Sentieon model
$PATH/DNAscopeIlluminaWES2.…
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Using the End-to-End mode in the STAR aligner, short reads with mismatch are tend to be aligned into a wrong place on the genome.
Take human genome (GRCh38) as an example, fragment `.....ttccaagtt…
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Hi,
I am running bs3-align.py and I am wondering if one can set the number of threads to use? Currently it seems that 2 SNAP threads are running. I could not find an option in the readme or option ou…
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Hi,
Just used bcbio-nextgen for the first time. We would like to use octopus for 10 WGS variant calling and would like to have a multisample vcf. In the bcbio next-gen doc we saw that the jointcall…
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I have to annotate novel diplonema genome. This species contains non-cannonical intron (Non GT-AG). So that I chose to use braker.
I have run command prothint to generate and prothint_augustus.gff…