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Hello!
I am trying to use GATB-minia-pipeline to assemble a genome. Because my storage is limited, I am not doing a multi-k but instead a k=41.
the assembly with minia works without issues, how…
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# Key specs for the MVP1
- [x] Have as many species as possible listed in https://brc-analytics.org/data/organisms
- [ ] Have all species from above registered as Galaxy Reference data with corre…
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Hello, I was using coverm to calculate the reads count mapped to a few genomes. But i frequently met the following probelm. Would you please help me to take a look? Thank you.
(coverm) user@user-X1…
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I run bwa mem twice, but the results slightly different, the only difference of two run that I increased computer memory,so does increasing memory cause a difference in BWA results?
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We are currently plagued with cryptic intermittent failures coming from the BWA and FML bindings in Travis CI. These usually manifest as a simple "exited with code 137" (ie., killed by signal 9) error…
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Hi, Li-An Yang,
I wanna evaluate my genome assembly data and try to use your software.
However, after trying, it couldn't finish successfully.
Please tell me what these sentences are trying to tel…
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Hello,
Is it possible to use LUMPY-SV on single-end reads aligned with bwa-aln? Is it possible to use it only with read-depth information?
I read in a reply to an issue (110; resolved) that LUMP…
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Hi Chong,
I'am from France and I think I have some problems with TERefiner_1. I wanted to know is it important for the rest of my analyzes? I obtain my contigs.fa but after Scaffolding I have zero …
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I am using the latest version of bwa-mem2 (2.2.1) and I indexed the database VirRefSeq_and_Virsorted_Tara_10kb.fasta (available at: /iplant/home/shared/iVirus/ExampleData/BowtieBatch/Inputs. The prefi…
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It seems the pipeline is unable to tell when the executable of one of the programs being called (say bwa) is non-existing. These checks were already in place in the bash version of the pipeline, but w…