User: Agaz Hussain Wani

Reputation:
40
Status:
New User
Location:
India
Last seen:
1 day, 2 hours ago
Joined:
2 years, 7 months ago
Email:
h************@gmail.com

Posts by Agaz Hussain Wani

<prev • 40 results • page 1 of 4 • next >
0
votes
1
answer
315
views
1
answers
Comment: C: What is each sequence valid identifier
... Great!, thank you very much. ...
written 3 days ago by Agaz Hussain Wani40
0
votes
1
answer
315
views
1
answers
Comment: C: What is each sequence valid identifier
... Thank you, it seems alright when I open the files in text mode, display on ssh terminal is different. ...
written 3 days ago by Agaz Hussain Wani40
0
votes
1
answer
315
views
1
answers
Comment: C: What is each sequence valid identifier
... Thank you, after doing `fastq-dump --split-3 SRR3620050` I got the file split into `SRR3620050_1.fastq` and `SRR3620050_2.fastq`, but still a read is split on more than 4 lines. ...
written 4 days ago by Agaz Hussain Wani40
0
votes
1
answer
315
views
1
answers
Comment: C: What is each sequence valid identifier
... Sorry for coming back. As I understood that fastq files follow a 4 line standard. But while downloading sequence data I came across samples with read length 600 (SRR3620050) and 400 (SRR5419561), which are spread on more than 4 lines, and the data is made public recently. I downloaded that data by ...
written 4 days ago by Agaz Hussain Wani40
2
votes
1
answer
139
views
1
answer
Where can I get fastq sequence files of length 150 and more.
... I want to perform alignment of the human sequence reads with the reference genome. I need reads length 150 and more (500) to test some algorithm. Where can I find such type of reads, both single and paired-end. I got reads from [1000 genome project](http://ftp.1000genomes.ebi.ac.uk/vol1/ftp/phase3/ ...
alignment sequence written 5 days ago by Agaz Hussain Wani40 • updated 5 days ago by Gungor Budak90
0
votes
0
answers
236
views
0
answers
Comment: C: topTable in limma
... Thanks **Devon Ryan**, you are right. ...
written 8 weeks ago by Agaz Hussain Wani40
0
votes
0
answers
236
views
0
answers
Comment: C: topTable in limma
... Thank you. I think `lfc = 10` is the cutoff value, so all genes having less or equal should be reported. I checked with different `lfc` values like 0.1 but no genes reported. On the basis of above pasted data what should be my `lfc` value to filter?. ...
written 8 weeks ago by Agaz Hussain Wani40
0
votes
0
answers
236
views
0
answers
Comment: C: topTable in limma
... I don't understand how lfc = 10 is equal to 1024 (Is it given in the documentation). If what you say is right also then it should select some genes as you can see there are many genes with lfc < 1024 . I also understand that p-value > 0.054 is not recommended but I just tried by setting diffe ...
written 8 weeks ago by Agaz Hussain Wani40
1
vote
0
answers
236
views
0
answers
topTable in limma
... I am using limma to perform differential expression of illumina microarray gene expression data. I get the `topTable` by using the following line of code top <- topTable(fit2, coef = i, n = Inf) logFC AveExpr t P.Value adj.P.Val B ILMN_17484 ...
limma toptable written 8 weeks ago by Agaz Hussain Wani40
0
votes
0
answers
216
views
0
answers
Comment: C: Perform differential expression for illumina data
... Same, no luck again. ...
written 3 months ago by Agaz Hussain Wani40

Latest awards to Agaz Hussain Wani

No awards yet. Soon to come :-)

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1500 users visited in the last hour