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fi1d18
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Recent Replies
Comment: Aligning fastq files using STAR
by
kcarery
•
0
Hey! Thank you so much for your help. You must be a teacher, if not, you would be an excellent one!
I actually tried to copy what you did …
Comment: Oxford Nanopore Single-Molecule Amplicon-Seq Phasing
by
KoppesEA
▴
70
This is what I came up with so far. Mapping PCR amplicons to a specific chromosome and then phasing alleles.
Comment: Oxford Nanopore Single-Molecule Amplicon-Seq Phasing
by
KoppesEA
▴
70
module load minimap2/2.24
module load gcc/8.2.0
module load samtools/1.14 ##note clair 3 dependencies is 1.15
module load c…
Comment: minimap2, before or after assembly?
by
manaswwm
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270
minimap2 is a sequence alignment tool and is blind to whether or not you are aligning from or to the reference genome. In your examples - C…
Comment: Add artificial intelligence training related disclaimers to your profile
by
Istvan Albert
96k
I would not want to impose my views on anyone else - especially not retroactively. We'll have to watch the directions things develop.
Comment: Survival analysis based on gene signature
by
Sy80
▴
10
I will try Cox regression with single sample enrichment scores as a continuous variable as per suggestions. Thank you!
Comment: Survival analysis based on gene signature
by
Sy80
▴
10
Great idea. I will give this a try. Thank you!
Comment: runing R script on VCF dile in ubuntu
by
Matthias Zepper
2.3k
When you ssh to your universities cluster, you are on a login node that is used to interact with the nodes that perform the actual computat…
Comment: What is the use of HETATM information while working on proteins?
by
Wayne
★
1.5k
See [HETATM at Proteopedia](https://proteopedia.org/wiki/index.php/HETATM). There's many reasons these would be important. A lot of post-tr…
Comment: runing R script on VCF dile in ubuntu
by
Dave Carlson
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1.1k
I obviously don't know your cluster, but if it's anything like the one I work on, running this command on the login/head node would be a vi…
Comment: Survival analysis based on gene signature
by
jv
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630
The Cox regression is an option for multivariate survival analysis
Comment: NCBI esearch results inconsistent with web-based search results?
by
Dunois
★
2.2k
I see. I actually managed to find out how to circumvent this.
`esearch` (and I suppose all its siblings) make a distinction between `tsa-m…
Answer: NCBI esearch results inconsistent with web-based search results?
by
barslmn
▴
30
esearch -db nuccore -query '((txid7604[Organism:exp]) AND ("tsa master"[Properties] OR "wgs master"[Properties]))'
Quotes matter, she…
Comment: runing R script on VCF dile in ubuntu
by
Eliza
•
0
Hi , I just ran the command Rscript chr_21.R on Ubuntu University cluster . Didn't use job schedule
Comment: Survival analysis based on gene signature
by
Hamid Ghaedi
2.8k
In such cases, I would suggest first doing a single-sample gene set enrichment analysis (like GSVA, ssGSEA) and then doing a survival analy…
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