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Comment: Steps for meta-analysis
by
majorprogeria
•
0
this is an pipeline that i am following "https://nbviewer.org/github/metaOmics/tutorial/blob/master/metaOmics_turtorial.pdf" i could'nt use…
Comment: convert Gene ID to Gene Symbol
by
majorprogeria
•
0
this one of the example "customerID
# uniSp.2
# uniSp.4
# uniSp.5
hsa-let-7a-3p
hsa-let-7a-5p
hsa-let-7b-3p"
and another one is this
"Ge…
Comment: Query coverage high, E-value low, and identity low - Blastp results interpretati
by
Mensur Dlakic
★
29k
I didn't learn this by reading a single book or an article, so nothing like that comes to mind. Some random resources:
- https://www.biost…
Answer: Single Nuclei RNA-Sequencing Analysis Without CellRanger
by
dsull
★
7.3k
Hmm, what aligner are you using? STARsolo will automatically put the barcodes into the CB:Z: tag in the BAM file.
Otherwise, I believe y…
Comment: GTF repeatmasker annotation file
by
rfran010
★
1.4k
I would also recommend the Hammell Lab's curated GTF files:
https://www.dropbox.com/scl/fo/jdpgn6fl8ngd3th3zebap/ACdZkShDC1au-OckIipI5kM/T…
Comment: GTF repeatmasker annotation file
by
rfran010
★
1.4k
Are you referring to the third column "exon". That is a placeholder of sorts. You can check a couple loci manually to confirm they don't al…
Comment: Query coverage high, E-value low, and identity low - Blastp results interpretati
by
Luana JBC
•
0
Could you recommend an article or a book?
Comment: Methods for directional pathway analysis of DEGs?
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Gordon Smyth
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Yes, I had already noted in my answer that the GO and KEGG annotations are not directional, meaning that genes in a GO term or KEGG pathway…
Comment: Query coverage high, E-value low, and identity low - Blastp results interpretati
by
Luana JBC
•
0
Hi, Mensur! Thank you very much for your explanation.
Best regards!
Answer: Unable to generate hierarchical and circle plot using CellChat
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S
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I spent days on this and funnily enough the minute I post about it, I solve the issue!!
There were 2 problems:
1. vertex.size = groupS…
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ATpoint
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Can you please elaborate what you aim to reveal with your "meta-analysis". Frankly, that you mention meta-analysis and fastqc in the same s…
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The essential thing to remember here is that your problem is NOT related to NCBI blast or IGV;
Your problem has to do with the discrepanc…
Comment: convert Gene ID to Gene Symbol
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GenoMax
150k
Always show examples of ID's (and include the source/genome) when asking questions about them. Otherwise there is no way to find out what y…
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GenoMax
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> 8, 151, 151
Even though the recommendation from 10x is to sequence R1 as 26 or 28 bp ( and R2 as ~ 98 bp) many times sequencing compani…
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microfuge
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Thanks for IGB, have always found it convenient to use. The interoperability with UCSC trackhubs is an unique feature of IGB which I like t…
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