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Dear All,
Can I use Mykrobe tool for targeted sequencing instead of whole genome sequencing?
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Hi
I get this error for WGS (24x), cell line no matched normal
```
> res
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Hello!
I have cDNA and direct RNA Nanopore reads which contain poly-A/poly-T sequences and adapters/barcodes.
A friend suggested me to use pychopper to remove those poly-A/poly-T sequences and a…
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Getting the following error with doAssoc5. The same genotype probability input file was used for doAssoc5 with a different phenotype and it worked fine... Any idea what's going on here? Thanks!
-> a…
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Hi, does QUAL here has the same meaning as QUAL in SNV calling, and is there any specific recommended threshold of QUAL for filtering low quality SVs called by SvABA?
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The setup files `rhimgCAMI2_setup.tar.gz` and the genomes `rhimgCAMI2_genomes.tar.gz` used for the _A. thaliana_ rhizosphere mock data have been downloaded.
- `wget -P /path/ https://frl.publisso.d…
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Hi, I want to use the S3norm for my ChIP-seq dataset normalization. But before I use it, I want to ask some questions on the usage to clarify:
1. I will run the S3norm in 4 treatments but using the…
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```
What steps will reproduce the problem?
1. bseqc mbias -s my_data.bam -r my_genome.fa -l 101 -n test_mbias -g 841000000
What is the expected output? What do you see instead?
Program does not run t…
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I keep getting this error while running Ray
Rank 30: assembler memory usage: 342492 KiB
Critical exception: The length of the requested memory exceeds the CHUNK_SIZE: 4718592 > 4194304
Ray: RayPlatfo…
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Conclusions from: #13
We found that correcting the kmer count by correction = (1-err)^k (count / correction) seems to work out fairly well.
We still need to handle the information loss from th…