User: greentailedmouse
greentailedmouse • 50
- Reputation:
- 50
- Status:
- Trusted
- Location:
- Last seen:
- 6 months, 1 week ago
- Joined:
- 7 years, 7 months ago
- Email:
- l***********@gmail.com
about me
Posts by greentailedmouse
<prev
• 8 results •
page 1 of 1 •
next >
0
votes
4
answers
452
views
4
answers
Answer:
A: Which tools do you miss?
... A replacement for AAT and/or exonerate. Some parts of eukaryotic annotation pipelines are older than a decade and not developed or maintained. ...
written 6 months ago by
greentailedmouse • 50
0
votes
1
answer
2.2k
views
1
answers
... No, I gave up on it. Sorry! ...
written 3.8 years ago by
greentailedmouse • 50
3
votes
1
answer
2.2k
views
7 follow
1
answer
... Hi all,
here is some background to my question in the title: I have two genome versions, a scaffolded and unscaffolded one; as luck has it, the annotated version is the unscaffolded one. I would like to update the coordinates in the GFF file to the scaffolded version. I wanted to use crossMap (http ...
written 4.2 years ago by
greentailedmouse • 50
• updated
3.3 years ago by
Malcolm.Cook • 1.2k
0
votes
1
answer
1.7k
views
1
answers
... I'll mark your answer as accepted since I've done something similar in the end; but it also answers my original question - namely, there is no such function or parameter in Granges. Thanks! ...
written 4.3 years ago by
greentailedmouse • 50
3
votes
1
answer
1.7k
views
1
answer
... Hi all,
I would like to get the upstream and downstream intergenic distance between two genes in R (taking into account that some genes may overlap). For example - in the following case I would expect to get a the upstream distance of 5 for gene A, a distance 0 or negative for downstream of A, and ...
written 4.4 years ago by
greentailedmouse • 50
• updated
4.4 years ago by
ddiez • 1.9k
2
votes
0
answers
2.3k
views
0
answers
... Hi all,
I have a question about what I first thought would be a trivial task. I would like to resolve the haplotypes of a non-model (diploid) species. I have a genome assembly, and a bam file where the reads (that were used for genome assembly) are mapped. The genotype of the mapped reads is thus t ...
written 4.4 years ago by
greentailedmouse • 50
1
vote
1
answer
2.7k
views
1
answers
... Thanks! In the end I did write my own script; I would prefer to use the perl package for the sake of code consistency.
...
written 7.0 years ago by
greentailedmouse • 50
1
vote
1
answer
2.7k
views
1
answer
... I'm using Bio::SearchIO to parse HMMER3 output.
I am able get the significance of each sequence (which is located in the table on top of the output) with $hit->significance. I can also get the c-Evalue by using $hsp->significance. However, the more informative number would be the i-Evalue (fr ...
written 7.0 years ago by
greentailedmouse • 50
• updated
4.6 years ago by
Biostar ♦♦ 20
Latest awards to greentailedmouse
Popular Question
3.8 years ago,
created a question with more than 1,000 views.
For Tool to generate a chain file from an agp file
Popular Question
3.8 years ago,
created a question with more than 1,000 views.
For Bio::Searchio For Hmmer3 Output (Best Domain E-Value And I-Evalue)
Popular Question
3.8 years ago,
created a question with more than 1,000 views.
For Get upstream and downstream intergenic regions in R
Popular Question
4.2 years ago,
created a question with more than 1,000 views.
For Bio::Searchio For Hmmer3 Output (Best Domain E-Value And I-Evalue)
Use of this site constitutes acceptance of our User
Agreement
and Privacy
Policy.
Powered by Biostar
version 2.3.0
Traffic: 1095 users visited in the last hour