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lieven.sterck
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Comment: Computational Biologist position at the University of Alabama at Birmingham
by
cpad0112
16k
Thank you for detailed reply. Appreciate it.
Comment: Orthologs vs PFAM
by
Mensur Dlakic
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11k
Pfam is domain-centric, so I was taking about orthology at the domain level. In many cases, especially in prokaryotes, proteins have a sing…
Comment: Kegg Id Vs Cog Id, And The Best Method For Large Batch Id Assignment?
by
Arsenal
▴
130
Just to add an update for anyone who happens to find this topic, there was a COG update (2021):
Galperin, Michael Y., Yuri I. Wolf, Kira S…
Comment: Orthologs vs PFAM
by
timothy.kirkwood
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40
https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1002073 but I double checked and the last authors are the same, so n…
Comment: bcftools merge
by
evafinegan
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0
Here is the output:
#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT YG932859 YG932858 YG932857 YG932851 YG932852 YG932850 YG932849 YG932…
Comment: How to analyze Infinium Mouse Methylation BeadChip array data?
by
Lindsay
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0
I had the same problem and made a modified version of the QCinfo function.
I changed the lines
```
cc = ctrls[ctrls$Type %in% c("BISULFI…
Comment: Orthologs vs PFAM
by
Dunois
▴
980
Are there examples of highly similar sequences from different species that aren't orthologs?
Comment: Orthologs vs PFAM
by
Dunois
▴
980
Were there really people on the other side of that fence?
Comment: Using PLINK to filter VCF files
by
Gary Longo
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0
@kevin any suggestions for running --indep-pairwise with unmapped SNPs? These are genotype by sequencing data and there is not a reference …
Answer: Velocyto: Not found cell and umi barcode in entry of the bam file
by
swbarnes2
10k
From the description, this was a 10xGenomics single cell dataset. The cell barcode and UMI information is in read 2, but STAR doesn't unde…
Comment: snakemake job status monitoring
by
lianov
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10
I assume this something you may have already added, but to be sure, do you have the log directives as part of your rules? https://snakemake…
Comment: Computational Biologist position at the University of Alabama at Birmingham
by
lianov
▴
10
Thank you @cpad0112 for your comment. Indeed UAB requests all the information from the screenshot which you have attached. However, most of…
Comment: flye assembly stuck on 'Aligning reads to the graph'
by
GenoMax
102k
That is good to know. You can also make use of those short reads to make sure there are no unexpected indels etc in your long read assembli…
Comment: problem: i try to merge reads with seqprep but is not working
by
GenoMax
102k
You can try the method suggested here to estimate size of inserts in your library: https://www.biostars.org/p/223897/#223916 It is not nece…
Comment: Orthologs vs PFAM
by
timothy.kirkwood
▴
40
Ah very interesting, thanks for your comment! Would you consider all members of a Pfam (= a protein family, not a superfamily, unless I mi…
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