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Question 1: Do we want to map the contigs or reads against the reference genomes?
Simone: Yes, I think that this is necessary for a number of things, including identification of core and accessory ge…
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Hi!
I'm trying to reduce the number of contigs in an assembly I have that was initially put together in SMRT analysis software but getting a much shorter assembly than expected from both related spec…
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Website: https://www.ncbi.nlm.nih.gov/research/pubtator3/
FTP: https://www.ncbi.nlm.nih.gov/research/pubtator3/ (We are most interested in [relation2pubtator3.gz](https://ftp.ncbi.nlm.nih.gov/pub/lu/…
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Hi
I am using sqanti3 with the following parameters :
```
Version 2.0.0
Input all_samples.chained.gff
Annotation OcoaRS1.PZYT01.fa.all.maker.functional_ipr.gff
Genome OcoaRS1.PZYT01.fa.…
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I assemble a haploid insect genome by using hifiasm v0.16.1-r375. It should be noted that my species has only one set of chromosomes lacking of paternal chromosome because it develops from one unferti…
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Hello!
I'm experiencing some issues with RAMPART and I'm wondering if there is a solution available. I would like to know if anyone has been able to resolve similar problems.
In our laboratory, …
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--Hi,
program failed with a list of 200000 entries
kmer-db build -k 21 -multisample-fasta input.list DGV-kmer-21.db
Kmer-db version 1.10.0 (18.07.2022)
S. Deorowicz, A. Gudys, M. Dlugosz, M. Kok…
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Hi,
I am wondering if these error messages are normal.
`Lmod has detected the following error: The following module(s) are unknown: "bedtools"
Please check the spelling or version number. A…
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- [ ] 1. Salmon/sleuth (Prereq: familiarity with HPC, bash and R)
- [x] 2. SRA/GEO data download (Prereq: familiarity with HPC and bash)
- [ ] 3. Sequence data QC (fastqc, multiqc, qualimap) (Prereq…
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Dear curators,
I tried to dig deeper into the nature research paper ([Bradley et al., 2015](https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4703848/)). In terms of mixed infection read analysis, the a…