User: rimgubaev
rimgubaev • 70
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Posts by rimgubaev
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... Hello everyone! I am new to GWAS analysis and currently read some papers related to it. I saw such a plot (LnP(D) per clusters K) in one paper and did not understand actually what it stands for. ![enter image description here][1]
[1]: https://i.pinimg.com/originals/f7/50/5f/f7505f7f96341535045c5 ...
written 18 days ago by
rimgubaev • 70
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123
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5 follow
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... How to remove the nucleotide sequence that correspond to adapters without removing the whole read?
![enter image description here][1]
[1]: https://i.pinimg.com/originals/0f/b0/c9/0fb0c97e19a1f5c49c9505a6b3ec211c.png ...
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... Hi, Everyone!
I want to annotate each line with factor variable (chain.lenght) like shown on the picture.![enter image description here][1]
Is it possible?
Here is my code:
ggplot(mz_rt, aes(rt, mz, size = acex, colour = as.factor(double.bonds))) +
geom_line(aes(group = as.factor(ch ...
written 3 months ago by
rimgubaev • 70
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207
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5 follow
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... Hello everyone! I wonder if somebody explain why FASTA format is called FASTA and what is the short history of it? ...
written 3 months ago by
rimgubaev • 70
9
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1
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358
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6 follow
1
answer
... I have a table with TPM expression values for several samples (10-12) and I want to create PCA plot in order to estimate similarity of raplicates of a certain conditions. If it possible could you please suggest some pipelines or commands for R? ...
written 5 months ago by
rimgubaev • 70
• updated
5 months ago by
andrew.j.skelton73 ♦ 5.5k
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... It's not quite a bioinformatics question. Maybe you would suggest some other forum. And if you already faced this problem I would be grateful if you suggest some experimental papers where various concentration of phytohormones (Jasmonic and Salicylic acids are be preferable) have been applied and th ...
written 5 months ago by
rimgubaev • 70
9
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2
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479
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2
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... Here is an example of volcano plot produced using edgeR results on DEG analysis. So my question is why there is no values in the middle of plot (indicated by red circle)?
![Volcano plot][1]
[1]: https://i.pinimg.com/originals/07/69/3d/07693dfcb3c8fe55fcae39d7caa64239.jpg ...
written 5 months ago by
rimgubaev • 70
• updated
5 months ago by
WouterDeCoster ♦ 36k
0
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1
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340
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1
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... Now it's clear, thanks! ...
written 6 months ago by
rimgubaev • 70
7
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1
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340
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1
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... This is a part of gff file for *Nicotiana tabacum* (tobacco) genome fasta. I must say that the fact that mRNA, gene, 1st exon and 1st CDS start at the same location (2309) is quite confusing! Any ideas?
NW_015787321.1 Gnomon gene 2309 5631 . + . ID=gene43;Dbxref=GeneID:107775605;Name=LOC10777 ...
written 6 months ago by
rimgubaev • 70
3
votes
2
answers
215
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2
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... Solved this problem! I've written a small python scrip which generates tab-formatted text using Nsite output.
Here is the code:
import sys
import re
a = sys.argv[1] # reading of input filename (first argument)
b = sys.argv[2] # reading of output filename (second argument)
...
written 6 months ago by
rimgubaev • 70
Latest awards to rimgubaev
Scholar
6 months ago,
created an answer that has been accepted.
For A: How to extract all promoter regions in multi-fasta format from genome using GFF?
Teacher
6 months ago,
created an answer with at least 3 up-votes.
For A: How to extract all promoter regions in multi-fasta format from genome using GFF?
Scholar
6 months ago,
created an answer that has been accepted.
For A: How to extract all promoter regions in multi-fasta format from genome using GFF?
Teacher
7 months ago,
created an answer with at least 3 up-votes.
For A: How to extract all promoter regions in multi-fasta format from genome using GFF?
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