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I can't seem to get AA running after pulling the latest image and cloning from github, AA_DATA_REPO is set as:
`$echo $AA_DATA_REPO`
`/home/Genomes/aa_data_repo`
Output after execution command:…
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Silly question, but is it preferable to use `core.aln` or `core.full.aln` from `snippy-core` as the input to `snp-dists`, or even some other file output from `snippy`?
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Hi,
There is something I am not sure to understand for the config file regarding the busco part.
It is possible to precise lineage and basal lineage.
My understanding was that in lineage I should…
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Hi @dg520 ,
Hope you are doing well :)
I have been trying to use IRFinder on BAM files generated by cellranger to quantify IR. On doing so, I get the following error :
```
WARN: This sampl…
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Hi,
I'm trying to separate my genomes into shared and unique genes between two groups, and while running query_pan_genome with the different parameters it seems to work. I get three spreadsheets am…
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## **Describe the bug**
I've been looking at how the pipeline runs, and I noticed something strange. I'm doing something pretty simple, just running chip-seq analysis of existing data on a new refere…
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Hi!
Our analysis and the design of Scout, for historical reasons, heavily rely on CADD. However, there are now several new in silico prediction tools available. The advantage of CADD is that …
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I'm running bdgcallpeak on a bedGraph file optained from an input normalised bigwig file (operation used was subtraction). The minimum value in the file is approximately -5000, and the maximum is appr…
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Hello,
Only Singularity is installed on our research cluster, not Docker. I have run the Docker container through singularity. When running analysis, I get the following error at the end:
,,,
h…
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Hi Huang,
Thanks for reading my previous issue. I had another problem. I am trying to apply vireo with scRNAseq datasets based on 1000 genome vcf file. However, all the cells are classified as unassi…