User: Martombo

gravatar for Martombo
Martombo2.5k
Reputation:
2,510
Status:
Trusted
Location:
Seville, ES
Website:
http://it.linkedin.com...
Last seen:
9 hours ago
Joined:
7 years, 10 months ago
Email:
m***************@gmail.com

Posts by Martombo

<prev • 301 results • page 1 of 31 • next >
3
votes
2
answers
166
views
2
answers
Comment: C: How to change my colnames(count.table) as exactly similar to my rownames(meta)?
... Please try and solve your R problems before posting questions on a specialized website like Biostars. You can generalize your problem like: "how to change rownames of a matrix" and google that. Otherwise you can try and understand the code you posted, if you didn't write it yourself, as you alread ...
written 7 weeks ago by Martombo2.5k
2
votes
1
answer
176
views
1
answers
Comment: C: Differential Expression Analysis with batches which have different biological gr
... How can you distinguish between batch effect noise and the biological variability you're interested in for batches 1 and 2? ...
written 8 weeks ago by Martombo2.5k
2
votes
3
answers
332
views
3
answers
Answer: C: Iteration to count the number of raw reads
... Yep, exactly. The second ` stops the expression at: `gunzip -c $f1 | echo $((` If you want to keep this line you can maybe use awk to divide by 4: RAW_READS=`gunzip -c $f1 | wc -l | awk '{print($1/4)}'` **edit**: this is probably more efficient: RAW_READS=`gunzip -c $f1 | awk 'END{ ...
written 9 weeks ago by Martombo2.5k
0
votes
3
answers
332
views
3
answers
Comment: C: Iteration to count the number of raw reads
... your use of ` is messing up this line: `gunzip -c $f1 | echo $((`wc -l`/4))` ...
written 9 weeks ago by Martombo2.5k
1
vote
3
answers
255
views
3
answers
Comment: C: Is Ingenuity Pathway Analysis still relevant for analyzing RNA-seq data?
... has it ever been? ...
written 10 weeks ago by Martombo2.5k
1
vote
0
answers
162
views
0
answers
Comment: C: Deseq2 positive results for genes highly variable between replicates
... In my experience, this kind of result typically stems from the presence of a very high variability in samples of the same group (compared to between groups). You may want to correct for possible co-variates in your data (see svaseq) or simply filter out results with high dispersion. ...
written 3 months ago by Martombo2.5k
0
votes
1
answer
184
views
1
answers
Comment: C: Error in some hog codes using pyham
... this is the best name for a package in the history of bioinformatics! ...
written 3 months ago by Martombo2.5k
0
votes
0
answers
239
views
0
answers
Comment: C: Removing adaptors from smallRNA seq data
... well it does seem like 60% of reads were trimmed, right? ...
written 3 months ago by Martombo2.5k
0
votes
0
answers
239
views
0
answers
Comment: C: Removing adaptors from smallRNA seq data
... Do a multiple sequence alignment of the last ~15 nucleotides of some hundred of reads and you should be able to identify the sequence of your adapter ...
written 3 months ago by Martombo2.5k
0
votes
2
answers
378
views
2
answers
Comment: C: Selecting the consensus/overlapped genes from the DE study
... As they state in the paper you linked, it is expected that by taking the overlap of different tools you improve the absolute accuracy measures. As I mentioned in my original comment, you will select genes whose differential expression is simply more significant. You can however also do that by lower ...
written 3 months ago by Martombo2.5k

Latest awards to Martombo

Scholar 12 days ago, created an answer that has been accepted. For C: what is tAKR in the last of htseq results.
Commentator 7 weeks ago, created a comment with at least 3 up-votes. For C: RNA-Seq counts for all genes?
Scholar 9 weeks ago, created an answer that has been accepted. For C: what is tAKR in the last of htseq results.
Epic Question 7 months ago, created a question with more than 10,000 views. For Sjdboverhang Option In Star
Commentator 9 months ago, created a comment with at least 3 up-votes. For C: RNA-Seq counts for all genes?
Student 10 months ago, asked a question with at least 3 up-votes. For Sjdboverhang Option In Star
Popular Question 10 months ago, created a question with more than 1,000 views. For human Natural Antisense Transcript database
Commentator 11 months ago, created a comment with at least 3 up-votes. For C: RNA-Seq counts for all genes?
Teacher 13 months ago, created an answer with at least 3 up-votes. For A: microRNA transcription start site prediction
Commentator 14 months ago, created a comment with at least 3 up-votes. For C: RNA-Seq counts for all genes?
Commentator 15 months ago, created a comment with at least 3 up-votes. For C: RNA-Seq counts for all genes?
Teacher 16 months ago, created an answer with at least 3 up-votes. For A: microRNA transcription start site prediction
Scholar 19 months ago, created an answer that has been accepted. For C: what is tAKR in the last of htseq results.
Teacher 19 months ago, created an answer with at least 3 up-votes. For A: microRNA transcription start site prediction
Scholar 19 months ago, created an answer that has been accepted. For C: what is tAKR in the last of htseq results.
Scholar 20 months ago, created an answer that has been accepted. For C: what is tAKR in the last of htseq results.
Popular Question 21 months ago, created a question with more than 1,000 views. For different output format in Clustal-Omega
Scholar 22 months ago, created an answer that has been accepted. For C: what is tAKR in the last of htseq results.
Teacher 22 months ago, created an answer with at least 3 up-votes. For A: microRNA transcription start site prediction
Teacher 2.1 years ago, created an answer with at least 3 up-votes. For A: microRNA transcription start site prediction
Appreciated 2.2 years ago, created a post with more than 5 votes. For A: Tophat --max-multihits option
Commentator 2.3 years ago, created a comment with at least 3 up-votes. For C: RNA-Seq counts for all genes?
Great Question 2.4 years ago, created a question with more than 5,000 views. For Sjdboverhang Option In Star
Appreciated 2.5 years ago, created a post with more than 5 votes. For A: Tophat --max-multihits option
Teacher 2.6 years ago, created an answer with at least 3 up-votes. For A: microRNA transcription start site prediction

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1153 users visited in the last hour