User: Agaz Hussain Wani

Reputation:
40
Status:
New User
Location:
India
Last seen:
1 month, 3 weeks ago
Joined:
3 years, 4 months ago
Email:
h************@gmail.com

Posts by Agaz Hussain Wani

<prev • 42 results • page 1 of 5 • next >
0
votes
0
answers
207
views
0
answers
Comment: C: How to interepet wgsim roc results
... I found a very informative post here http://research.cs.wisc.edu/wham/comparison-using-wgsim/, still comments are welcome. ...
written 5 months ago by Agaz Hussain Wani40
0
votes
0
answers
207
views
0
answers
How to interepet wgsim roc results
... I am trying to get the roc results for various tools by using `wgsim` tool which I at http://lh3lh3.users.sourceforge.net/alnROC.shtml. I tried the following command `wgsim_eval.pl alneval -ag50 results.sam > results.roc ` and I got something like `255 51557 3890`, sometimes `255 3624 1190`. I ...
next-gen alignment roc wgsim written 5 months ago by Agaz Hussain Wani40
0
votes
1
answer
580
views
1
answers
Comment: C: What is each sequence valid identifier
... Great!, thank you very much. ...
written 8 months ago by Agaz Hussain Wani40
0
votes
1
answer
580
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 8 months ago by Agaz Hussain Wani40
0
votes
1
answer
580
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 8 months ago by Agaz Hussain Wani40
0
votes
1
answer
580
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 8 months ago by Agaz Hussain Wani40
4
votes
2
answers
506
views
5 follow
2
answers
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 8 months ago by Agaz Hussain Wani40 • updated 8 months ago by Vijay Lakhujani3.0k
0
votes
0
answers
791
views
0
answers
Comment: C: topTable in limma
... Thanks **Devon Ryan**, you are right. ...
written 10 months ago by Agaz Hussain Wani40
0
votes
0
answers
791
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 10 months ago by Agaz Hussain Wani40
0
votes
0
answers
791
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 10 months ago by Agaz Hussain Wani40

Latest awards to Agaz Hussain Wani

Popular Question 3 months ago, created a question with more than 1,000 views. For what is targets.txt file in codelink R package
Popular Question 4 months ago, created a question with more than 1,000 views. For what is targets.txt file in codelink R package
Popular Question 5 months ago, created a question with more than 1,000 views. For Is reference genome same for DNA and RNA sequence alignment
Popular Question 5 months ago, created a question with more than 1,000 views. For Is reference genome same for DNA and RNA sequence alignment

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 805 users visited in the last hour