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Popular Question to
Matteo Ungaro
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rbronste
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Basti
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predeus
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Recent Replies
Comment: Merging Outputs from plink --assoc and --hardy to Produce Table
by
Koketso
•
0
Thank you so much. How about calculating allelic odds ratios? Which plink/R command can I use for that?
Comment: Integration of transcriptomics and proteomics: difficult matching names
by
ATpoint
81k
For such analysis I always first translate everything to Ensembl Gene IDs (biomaRt is a good help here) and then I do the matching with thi…
Comment: Integration of transcriptomics and proteomics: difficult matching names
by
GenoMax
141k
I can see this in the list
GI:2387631 Nup42 O Gene nucleoporin 42 10.72 5 24369961 24389011 + AA867018|AB067574|AI426644|AK077066|AK07…
Comment: Rename multiple fastq.gz files
by
Jérémie
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0
Sorry, I misunderstood. Thank you so much for this.
Comment: Integration of transcriptomics and proteomics: difficult matching names
by
sansan_96
▴
70
Hello,
This conversion tool has been useful to me, maybe it can help you:
https://biit.cs.ut.ee/gprofiler/convert
Comment: BRAKER3 genome annotation
by
sansan_96
▴
70
Perhaps eggNOG-MAPPER can be useful for functional annotation:
1. https://academic.oup.com/nar/article/47/D1/D309/5173662
2. http://eggnog…
Comment: BRAKER3 genome annotation
by
Buffo
★
2.4k
I suggest searching for the difference between structural annotation (identifying the coordinates of the ORFs in a sequence) and functional…
Comment: Integration of transcriptomics and proteomics: difficult matchin names
by
ntsopoul
▴
60
looks good but I cannot find either Nupl2 nor Nup42 in the list!
Comment: Integration of transcriptomics and proteomics: difficult matchin names
by
GenoMax
141k
This table from Jackson labs that correlates many mouse identifiers with external databases will help. Look at the headers of the columns t…
Comment: Rename multiple fastq.gz files
by
bk11
★
2.3k
I just gave hint in the comment above. Please try this, it should work for you.
#!/bin/bash
for file in `ls *fastq.gz`; do
f…
Comment: BRAKER3 genome annotation
by
andorjkiss
▴
40
I also have this exact same question. I have my entire genome annotated and a braker.GTF file, but without protein "product" names.
Answer: trouble using sequenceTubeMap in chromium installed on WSL
by
anovak
▴
80
`Error: spawn vg ENOENT` means that Node could not find the `vg` command when it tried to run it. It got back [the `ENOENT` error code](htt…
Answer: List of species in RepeatMasker Tool (species parameter)
by
Bioinfotec
▴
10
From 4.1.1 version, The utilities 'queryTaxonomyDatabase.pl' and 'queryRepeatDatabase.pl' are no
longer included, since that data…
Comment: RNAseq of primary tumor and metastases in two different organ
by
matteo.levorato
•
0
Yeah, I heard that for cycle are not super suggested in R. I can't use tibble since my bone df has a different size than lung df..
However …
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