Moderator: Asaf

gravatar for Asaf
Asaf4.1k
Reputation:
4,120
Status:
Trusted
Location:
Israel
Scholar ID:
Google Scholar Page
Last seen:
5 days, 19 hours ago
Joined:
6 years ago
Email:
a*****@gmail.com

Posts by Asaf

<prev • 452 results • page 1 of 46 • next >
0
votes
0
answers
110
views
0
answers
Comment: C: Normalization methods for metagenomics WGS data (not 16S data)
... DESeq2 normalization process assumes that most of the entities are the same in all of the samples. If you think that this assumption applies then you're good to go with DESeq2, you can go forward and do the entire analysis with it. If, however, this is not the case and the population is completely d ...
written 25 days ago by Asaf4.1k
0
votes
0
answers
110
views
0
answers
Comment: C: Normalization methods for metagenomics WGS data (not 16S data)
... If you have a table with read counts then DESeq2 should work, the main issue here is what reference to use. ...
written 25 days ago by Asaf4.1k
0
votes
1
answer
104
views
1
answers
Comment: C: Identifying paralogs using phylogenetic tree
... You might want to take a look at: https://www.nature.com/nature/journal/v449/n7158/full/nature06107.html They did this for fungi and were able to track down paralogs, especially after the whole genome duplication event. ...
written 27 days ago by Asaf4.1k
0
votes
0
answers
89
views
0
answers
Comment: C: Mothur crash issue
... Which version of mothur are you using? ...
written 5 weeks ago by Asaf4.1k
0
votes
0
answers
108
views
0
answers
Comment: C: Retrieving upstream and downstream intron coordinates
... Bedtools should help ...
written 6 weeks ago by Asaf4.1k
2
votes
2
answers
151
views
2
answers
Answer: A: Raw expression data is better for FPKM normalised expression profile in RNA seq
... In a nutshell, because you'll be able to apply statistical models to your values. When you normalize to FPKM you lose your ability to do so and end up with less robust statistical tests ...
written 6 weeks ago by Asaf4.1k
3
votes
2
answers
179
views
2
answers
Answer: A: Development of a tool for NGS
... Write a software that does a lot of small things on fasta or fastq files. Search here for questions like how can I change the header, how to extract etc. In the end you'll have a library that would be very useful. Since it's a course you should put the emphasis on building it correctly rather than ...
written 6 weeks ago by Asaf4.1k
1
vote
0
answers
152
views
0
answers
Comment: C: Java memory issue in GATK
... Did the specific node had more memory or the cluster in general? If the jobs are not distributed well enough, several jobs find themselves on the same node, exhausting its memory. ...
written 9 weeks ago by Asaf4.1k
0
votes
0
answers
668
views
0
answers
Comment: C: Msc in bioinformatics - MathStatistics as optional courses?
... What is your background? ...
written 9 weeks ago by Asaf4.1k
0
votes
0
answers
134
views
0
answers
Comment: C: Conservation Score Of Amino Acid Positions (2017)
... 1. I'll always prefer an old tool which is still maintained over a new one. 2. You can look for papers citing old tools to see which new tools are out there. ...
written 9 weeks ago by Asaf4.1k

Latest awards to Asaf

Teacher 6 days ago, created an answer with at least 3 up-votes. For A: How To Mark Specific Species On The Tree Of Life?
Commentator 4 weeks ago, created a comment with at least 3 up-votes. For C: What to do after an genome assembly?
Teacher 6 weeks ago, created an answer with at least 3 up-votes. For A: How To Mark Specific Species On The Tree Of Life?
Popular Question 6 weeks ago, created a question with more than 1,000 views. For Getting transcripts from BAM file with gene names
Popular Question 8 weeks ago, created a question with more than 1,000 views. For Getting transcripts from BAM file with gene names
Scholar 3 months ago, created an answer that has been accepted. For A: What are the "Coding", "Maximal" and "Two templates" options for megablast?
Teacher 3 months ago, created an answer with at least 3 up-votes. For A: How To Mark Specific Species On The Tree Of Life?
Popular Question 6 months ago, created a question with more than 1,000 views. For Counting reads for gene in bacterial genomes
Teacher 7 months ago, created an answer with at least 3 up-votes. For A: Find Enriched Function In Go Terms
Teacher 7 months ago, created an answer with at least 3 up-votes. For A: Find Enriched Function In Go Terms
Popular Question 8 months ago, created a question with more than 1,000 views. For What Do You Waste Your Time On
Scholar 8 months ago, created an answer that has been accepted. For A: What are the "Coding", "Maximal" and "Two templates" options for megablast?
Scholar 9 months ago, created an answer that has been accepted. For A: What are the "Coding", "Maximal" and "Two templates" options for megablast?
Scholar 9 months ago, created an answer that has been accepted. For A: What are the "Coding", "Maximal" and "Two templates" options for megablast?
Scholar 9 months ago, created an answer that has been accepted. For A: What are the "Coding", "Maximal" and "Two templates" options for megablast?
Scholar 9 months ago, created an answer that has been accepted. For A: What are the "Coding", "Maximal" and "Two templates" options for megablast?
Scholar 9 months ago, created an answer that has been accepted. For A: What are the "Coding", "Maximal" and "Two templates" options for megablast?
Teacher 9 months ago, created an answer with at least 3 up-votes. For A: Find Enriched Function In Go Terms
Scholar 10 months ago, created an answer that has been accepted. For A: What are the "Coding", "Maximal" and "Two templates" options for megablast?
Teacher 10 months ago, created an answer with at least 3 up-votes. For A: Find Enriched Function In Go Terms
Teacher 10 months ago, created an answer with at least 3 up-votes. For A: Find Enriched Function In Go Terms
Teacher 11 months ago, created an answer with at least 3 up-votes. For A: Find Enriched Function In Go Terms
Great Question 13 months ago, created a question with more than 5,000 views. For What Do You Waste Your Time On
Teacher 14 months ago, created an answer with at least 3 up-votes. For A: Find Enriched Function In Go Terms
Popular Question 15 months ago, created a question with more than 1,000 views. For What Do You Waste Your Time On

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 663 users visited in the last hour