Moderator: Asaf

gravatar for Asaf
Asaf8.4k
Reputation:
8,420
Status:
Trusted
Location:
Israel
Scholar ID:
Google Scholar Page
Last seen:
1 week ago
Joined:
9 years, 5 months ago
Email:
a*****@gmail.com

Posts by Asaf

<prev • 1,220 results • page 1 of 122 • next >
1
vote
1
answer
109
views
1
answers
Comment: C: PC1 vs PC2 in separating healthy vs disease
... They might be separated by PC3, who knows. Since the first PC is separating the two outliers than the rest, removing them should change the PCA and you might get a separation. Even if not, you shouldn't remove these samples. ...
written 19 days ago by Asaf8.4k
1
vote
1
answer
109
views
1
answers
Answer: C: PCA1 vs PCA2 in separating healthy vs disease
... The two allergic samples on the far right look suspicious, I'm sure that removing them will result with a better-looking PCA plot, you should try to understand what makes them so different than the rest of the samples. ...
written 19 days ago by Asaf8.4k
0
votes
0
answers
86
views
0
answers
Comment: C: Defining groups in Geo2R
... Yeah, that's weird, it only has the M9 replicates. You should probably email the corresponding author and ask them. ...
written 20 days ago by Asaf8.4k
1
vote
1
answer
131
views
1
answers
Comment: C: Hypothetical protein in Prokka
... You can use eggnog-mapper http://eggnog-mapper.embl.de/ to assign each protein an EggNOG orthology group, it's not being used with prokka. ...
written 29 days ago by Asaf8.4k
0
votes
0
answers
134
views
0
answers
Comment: C: what's the best Kmer should be set when assembling bacteria genome
... In my experience too. ...
written 5 weeks ago by Asaf8.4k
1
vote
0
answers
134
views
0
answers
Comment: C: what's the best Kmer should be set when assembling bacteria genome
... Assembly is an art, usually the default works good. Anyway I would use an established pipeline like https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1007134 or https://github.com/nf-core/bacass ...
written 6 weeks ago by Asaf8.4k
0
votes
0
answers
162
views
0
answers
Comment: C: Surrogate variables in eQTL studies
... What are PC1-5 ? ...
written 7 weeks ago by Asaf8.4k
0
votes
0
answers
141
views
0
answers
Comment: C: Batch correction methylation array datasets. any packages?
... I think that sva is your go-to in this case unless you think there is a specific effect for methylation that is more nuanced that will make a surrogate effect act differently on this data. Since you only have processed data I think you'll be good with that. ...
written 7 weeks ago by Asaf8.4k
1
vote
1
answer
222
views
1
answers
Comment: C: How to fix "ValueError: not enough values to unpack (expected 3, got 1)" when ex
... I'm guessing an empty line in a bed (?) file. Try actually explaining what was the input and the error. ...
written 7 weeks ago by Asaf8.4k
1
vote
1
answer
116
views
1
answers
Answer: A: Rename and move Spades assemblies in batch
... I guess you can use a bash script to do that. Something like: for f in */contigs.fasta; do cp $f /destination/dir/${f%/contigs.fasta}.fasta; done The `%` removes the following text from the variable so the contigs.fasta will be changed to the folder name. (I didn't test it but it should work) ...
written 8 weeks ago by Asaf8.4k

Latest awards to Asaf

Teacher 12 days ago, created an answer with at least 3 up-votes. For A: How To Mark Specific Species On The Tree Of Life?
Teacher 4 weeks ago, created an answer with at least 3 up-votes. For A: How To Mark Specific Species On The Tree Of Life?
Scholar 8 weeks ago, created an answer that has been accepted. For A: What are the "Coding", "Maximal" and "Two templates" options for megablast?
Teacher 11 weeks ago, created an answer with at least 3 up-votes. For A: How To Mark Specific Species On The Tree Of Life?
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?
Appreciated 3 months ago, created a post with more than 5 votes. For A: How To Mark Specific Species On The Tree Of Life?
Commentator 3 months ago, created a comment with at least 3 up-votes. For C: Normalization in RNA-seq
Commentator 3 months ago, created a comment with at least 3 up-votes. For C: Normalization in RNA-seq
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?
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?
Scholar 5 months ago, created an answer that has been accepted. For A: What are the "Coding", "Maximal" and "Two templates" options for megablast?
Teacher 5 months ago, created an answer with at least 3 up-votes. For A: How To Mark Specific Species On The Tree Of Life?
Scholar 5 months ago, created an answer that has been accepted. For A: What are the "Coding", "Maximal" and "Two templates" options for megablast?
Teacher 5 months ago, created an answer with at least 3 up-votes. For A: How To Mark Specific Species On The Tree Of Life?
Scholar 5 months ago, created an answer that has been accepted. For A: What are the "Coding", "Maximal" and "Two templates" options for megablast?
Teacher 6 months ago, created an answer with at least 3 up-votes. For A: How To Mark Specific Species On The Tree Of Life?
Oracle 6 months ago, created more than 1,000 posts (questions + answers + comments).
Appreciated 7 months ago, created a post with more than 5 votes. For A: How To Mark Specific Species On The Tree Of Life?
Teacher 7 months ago, created an answer with at least 3 up-votes. For A: How To Mark Specific Species On The Tree Of Life?
Scholar 7 months ago, created an answer that has been accepted. For A: What are the "Coding", "Maximal" and "Two templates" options for megablast?
Teacher 7 months ago, created an answer with at least 3 up-votes. For A: How To Mark Specific Species On The Tree Of Life?
Teacher 7 months ago, created an answer with at least 3 up-votes. For A: How To Mark Specific Species On The Tree Of Life?
Scholar 7 months ago, created an answer that has been accepted. For A: What are the "Coding", "Maximal" and "Two templates" options for megablast?
Scholar 8 months ago, created an answer that has been accepted. For A: What are the "Coding", "Maximal" and "Two templates" options for megablast?

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1395 users visited in the last hour