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When running RepeatMasker on genome sequenced assembled from HiFi long reads, significant repetitive portions of scaffolds are left unmasked (sometimes up to 10% of total bases). This has a negative i…
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I am running PBSV on a SLURM based compute node, my installation of PBSV is via the most recent docker image (run via singularity). I am using the mm10 genome from iGenomes for alignment and an mm10 s…
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They are needed
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Hello,
At UMCCR, we use arriba as a fusion caller for WTS clinical samples for cancer patients. Arriba is part of our WTS production pipeline setup and works great.
We have recently encountered …
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Dear VG team
I want to use VG to genotype the copy number of the short tandem repeats (ATCATCATC) based on short reads.
In the alt field, each allele represents one specific copy number, such as: …
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Reports of failures at the spades step in bugs
toolshed.g2.bx.psu.edu/repos/iuc/unicycler/unicycler/0.4.8.0
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This happens when I login the container, and can't quit by Ctrl-c.
My system is `Ubuntu 12.04`, kernel is `3.8.0-25-generic`.
docker version:
```
root@wutq-docker:~# docker version
Client version: …
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the results looks like strange，Why can sequences with length 1914830 be fully aligned t…
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Dear Tamara,
If I understand correctly the final results of found ITDs are in file `itds_collapsed-is-same_is-similar_is-close_is-same_trailing_hc.tsv`.
This file contains the following data (be…