User: Sam

gravatar for Sam
Sam20
Reputation:
20
Status:
New User
Location:
Last seen:
1 month, 2 weeks ago
Joined:
4 months, 3 weeks ago
Email:
V**********@gmail.com

Posts by Sam

<prev • 71 results • page 1 of 8 • next >
0
votes
1
answer
148
views
1
answers
Comment: C: bash and awk code
... yes , I need to add organism name to second file but organism name is NOT constant. ...
written 6 weeks ago by Sam20
1
vote
1
answer
148
views
1
answer
bash and awk code
... Hello, how I can add organism name to miRNA name? Thanks Organism: aau,mir162,ATAAACCTCTGCATCCAG,N/A,28,22,2.19,1.82 convert to: Organism: aau,aau-mir162,ATAAACCTCTGCATCCAG,N/A,28,22,2.19,1.82 ...
awk bash written 6 weeks ago by Sam20 • updated 6 weeks ago by Pierre Lindenbaum104k
0
votes
0
answers
260
views
0
answers
Comment: C: heatmap 2 error
... I used above data to draw volcano plot , and I want to label volcano dot with miR names. ...
written 3 months ago by Sam20
0
votes
0
answers
260
views
0
answers
Comment: C: heatmap 2 error
... this is my input matrix with mirname : id,baseMean,log2FoldChange,lfcSE,stat,pvalue,padj mir-10a-5p,43132.8824542284,-5.900679019,0.7586849901,-7.7775085786,7.39667555984345E-15,4.54895546930372E-12 ...
written 3 months ago by Sam20
0
votes
0
answers
260
views
0
answers
Comment: C: heatmap 2 error
... with removing n/a padj problem solved and I got plot but instead of miR name , each dot labeled by row number , how I can replace them with each miR name ? ...
written 3 months ago by Sam20
0
votes
0
answers
260
views
0
answers
Comment: C: heatmap 2 error
... I introduced the out put of deseq2 as input matrix wit this command : res <- read.table ("~/DE_expression_miRNA", header=T, sep=",") cols <- densCols(res$log2FoldChange, -log10(res$pvalue)) but I got this error: Error in Math.factor(res$pvalue) : ‘log10’ not meaningful for factors ...
written 3 months ago by Sam20
0
votes
0
answers
260
views
0
answers
Comment: C: heatmap 2 error
... Thanks in advance Kevin, could you also help me in command for volcano plot( log2 fold change vs. -log2 P-value)? some thing like this link : https://www.researchgate.net/figure/6680131_fig4_Volcano-plots-log2-fold-change-vs-log2-P-value-A-gene-was-identified-as ...
written 3 months ago by Sam20
0
votes
0
answers
260
views
0
answers
Comment: C: heatmap 2 error
... Hi Kevin, I'm new in R, could you explain a bit more about filter of mir id's? ...
written 3 months ago by Sam20
4
votes
0
answers
260
views
0
answers
heatmap 2 error
... When I try to run the heatmap2 for my dataset of log2 FC , I got 'x' must have at least 2 rows and 2 columns error, how I can solve this error for my dataset matrix? Thanks id log2FoldChange mir-120a-5p -5.900679019 mir-190b-3p 2.8326859513 mir-173-5p 2.9164912341 ...
heatmap written 3 months ago by Sam20
0
votes
0
answers
270
views
0
answers
problem with bowtie alignment
... I have a problem with bowtie alignment, I used bowtie to find match sequence in fastq file with rfam sequence list. I tested it in 2 different conditions: with and without miRNAs sequence in rfam list. But there is a big difference between result in these 2 different condition. When I used complete ...
smallrna bowtie written 3 months ago by Sam20 • updated 11 weeks ago by Biostar ♦♦ 20

Latest awards to Sam

Rising Star 3 months ago, created 50 posts within first three months of joining.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 591 users visited in the last hour