Moderator: pld

gravatar for pld
pld4.5k
Reputation:
4,500
Status:
Trusted
Location:
United States
Last seen:
1 day, 3 hours ago
Joined:
4 years, 2 months ago
Email:
j*************@gmail.com

about me

Posts by pld

<prev • 656 results • page 1 of 66 • next >
3
votes
2
answers
209
views
2
answers
Comment: C: Is annotation of enhancers to nearest gene pointless?
... I think the paper says that 47% of elements impact the nearest TSS. The 7% is when considering looping interactions only. > Next we explored whether the relative order of elements in the genome > affects which long-range interactions occur. It is often assumed that > distal elements such ...
written 1 day ago by pld4.5k
0
votes
1
answer
241
views
1
answers
Comment: C: "Optimal" setting of CPU and max_memory in Trinity
... It is going to take a while, give it everything you've got. I wouldn't overthink this, you have a single small machine. I'd be more concerned about not having enough ram. ...
written 29 days ago by pld4.5k
1
vote
1
answer
151
views
1
answers
Comment: C: STAR command gets Killed
... HPC clusters all tend to have their own rules, features and etc. I have a feeling this might be a problem with how you're trying to run the job and not with STAR. Your cluster should have some kind of support team that should be better equipped to handle this issue. Assuming you're running Slurm, t ...
written 5 weeks ago by pld4.5k
0
votes
1
answer
195
views
1
answers
Comment: C: I want DATA SETS for Machine learning
... It even shows up on bing (near the bottom)! https://www.bing.com/search?q=mhc-1+binding+dataset&qs=n&form=QBLH&sp=-1&pq=mhc-1+binding+data&sc=0-18&sk=&cvid=D10100E784BF49CA8910BDB23DE298A4 ...
written 7 weeks ago by pld4.5k
0
votes
1
answer
195
views
1
answers
Comment: C: I want DATA SETS for Machine learning
... First hit when you google "mhc-1 binding dataset". The third hit is even from an AI lab: http://ailab.ist.psu.edu/red/mhci.html ...
written 7 weeks ago by pld4.5k
1
vote
0
answers
109
views
0
answers
Comment: C: Problem with using "until" in "bash script"
... BASH has an until loop: http://tldp.org/LDP/Bash-Beginners-Guide/html/sect_09_03.html ...
written 8 weeks ago by pld4.5k
0
votes
1
answer
172
views
1
answers
Comment: C: RNA Seq analysis of virally infected cells
... If you're working with a RNA virus, remember you'll have to find a way to differentiate between genome (and any genomic intermediates) and viral mRNA. ...
written 3 months ago by pld4.5k
0
votes
6
answers
1.2k
views
6
answers
Comment: C: More than 300.000 peaks for a viral transcription factor - what could this mean?
... You said "expressed the TF", this would be in transfected cells, or were they infected with virus? Do you have a control in your RNA-Seq experiments (e.g. transfected for a non-TF EBV protein)? It would be important to know if the DEGs you've found are in response to the TF specifically and not in r ...
written 3 months ago by pld4.5k
0
votes
3
answers
279
views
3
answers
Comment: C: Softwares for Bacterial/Viral Classification from RNAseq
... Have you explored making a custom database for Kraken? ...
written 3 months ago by pld4.5k
0
votes
2
answers
478
views
2
answers
Comment: C: visualization problems: interesting research problems for postgraduate thesis [r
... I would personally love to see some better visualizations of transcriptome assembly quality. ...
written 3 months ago by pld4.5k

Latest awards to pld

Popular Question 4 weeks ago, created a question with more than 1,000 views. For R/Bioconductor: Applying Limma Functions To A Matrix.
Popular Question 9 weeks ago, created a question with more than 1,000 views. For R/Bioconductor: Applying Limma Functions To A Matrix.
Popular Question 3 months ago, created a question with more than 1,000 views. For R/Bioconductor: Applying Limma Functions To A Matrix.
Appreciated 3 months ago, created a post with more than 5 votes. For C: Studying Bioinformatics - Reasons, motives and career
Popular Question 3 months ago, created a question with more than 1,000 views. For R/Bioconductor: Applying Limma Functions To A Matrix.
Appreciated 3 months ago, created a post with more than 5 votes. For C: Studying Bioinformatics - Reasons, motives and career
Popular Question 3 months ago, created a question with more than 1,000 views. For R/Bioconductor: Applying Limma Functions To A Matrix.
Popular Question 5 months ago, created a question with more than 1,000 views. For R/Bioconductor: Applying Limma Functions To A Matrix.
Popular Question 6 months ago, created a question with more than 1,000 views. For R/Bioconductor: Applying Limma Functions To A Matrix.
Commentator 6 months ago, created a comment with at least 3 up-votes. For C: Genomics is not Special. Computational Biologist are reinventing the wheel for b
Scholar 6 months ago, created an answer that has been accepted. For A: difference between "predicted coding region" and "Hypothetical Protein
Teacher 6 months ago, created an answer with at least 3 up-votes. For A: Paper publication without qPCR validation
Commentator 7 months ago, created a comment with at least 3 up-votes. For C: Genomics is not Special. Computational Biologist are reinventing the wheel for b
Teacher 7 months ago, created an answer with at least 3 up-votes. For A: Paper publication without qPCR validation
Commentator 7 months ago, created a comment with at least 3 up-votes. For C: Genomics is not Special. Computational Biologist are reinventing the wheel for b
Popular Question 8 months ago, created a question with more than 1,000 views. For R/Bioconductor: Applying Limma Functions To A Matrix.
Commentator 10 months ago, created a comment with at least 3 up-votes. For C: Genomics is not Special. Computational Biologist are reinventing the wheel for b
Teacher 10 months ago, created an answer with at least 3 up-votes. For A: Paper publication without qPCR validation
Popular Question 11 months ago, created a question with more than 1,000 views. For R/Bioconductor: Applying Limma Functions To A Matrix.
Appreciated 12 months ago, created a post with more than 5 votes. For C: Studying Bioinformatics - Reasons, motives and career
Teacher 12 months ago, created an answer with at least 3 up-votes. For A: Paper publication without qPCR validation
Commentator 12 months ago, created a comment with at least 3 up-votes. For C: Genomics is not Special. Computational Biologist are reinventing the wheel for b
Commentator 12 months ago, created a comment with at least 3 up-votes. For C: Genomics is not Special. Computational Biologist are reinventing the wheel for b
Appreciated 12 months ago, created a post with more than 5 votes. For A: I want to re-open the old debate: python or perl ?
Commentator 12 months ago, created a comment with at least 3 up-votes. For C: Genomics is not Special. Computational Biologist are reinventing the wheel for b

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1265 users visited in the last hour