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Recent Replies
Comment: Warning in bcftools when subsetting a VCF by variant ID
by
Pierre Lindenbaum
166k
the message comes from the first bcftools.
verify by running gunzip -c instead of bcftools
```
gunzip -c reheader_6_chrfixed_filtered_im…
Comment: Warning in bcftools when subsetting a VCF by variant ID
by
Mwangana
•
0
@Pierre Lindenbaum, this works perfectly well as it prints to the screen correctly but the error returns when I redirect it to a file:
…
Answer: Warning in bcftools when subsetting a VCF by variant ID
by
Pierre Lindenbaum
166k
```
bcftools view reheader_6_chrfixed_filtered_imputed.vcf.gz |\
awk '/^#CHROM/ {printf("##INFO=<ID=END,Number=1,Type=Integer,Descript…
Comment: Differeces between Seurat::RunPCA and scater::runPCA affect downstream analyses
by
Bastien Hervé
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> Are scater::runPCA's underlying assumptions/method incompatible with SCT transformation?
Potentially. Could you try doing a dummy test w…
Comment: What is the difference between JASPAR IDs MA0668.3 and MA1993.2 for Neurod2?
by
GenoMax
151k
While we wait for answers in this specific case, it may be best to post your question at JASPAR's google group site: https://groups.google.…
Comment: How can I find KO IDs for ORF sequences in a large FASTA file?
by
Mensur Dlakic
★
29k
I don't think anyone can help you when the only feedback you provide is "there are some errors occurring." If I told you that I tried to bu…
Comment: How can I find KO IDs for ORF sequences in a large FASTA file?
by
Nikesh
•
0
Hi t tried to work with this, but there are some errors occurring, Do you have code or any source material to work on this ? @mensur
Comment: Differeces between Seurat::RunPCA and scater::runPCA affect downstream analyses
by
txema.heredia
▴
210
Thanks for your input.
Yes, the cell types are closely related. Both cell types have already been identified in multiple single cell paper…
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dthorbur
★
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Is there any way to estimate ploidy from the supplier, or from the ancestors that established the hybrids?
I would suggest making an educ…
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This is a microarray spotting/printing machine that was likely used to "print" oligos (complementary to specific genes etc) on array substr…
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> ERROR ~ No such file or directory: /home/gigiux/Downloads/ALIGN/target_genome_file.fa
Looks like the error is now with a different file.
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You can use `blastdbcmd` to retrieve data from pre-formatted databases. An example that is supposed to retrieve `gi` numbers is the command…
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vikasmh111
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Thank you, will try and check.
Comment: How to generate identiy score between aligned sequences with Mauve?
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marongiu.luigi
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Thank you, I tried but this time I got:
```
ERROR ~ Validation of pipeline parameters failed!
-- Check '.nextflow.log' file for details
T…
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