User: Amaranta_Remedios

Reputation:
0
Status:
New User
Last seen:
1 week, 3 days ago
Joined:
1 year, 8 months ago
Email:
l*************@gmail.com

Profile information, website and location are not shown for new users.

This helps us discourage the inappropriate use of our site.

Posts by Amaranta_Remedios

<prev • 20 results • page 1 of 2 • next >
0
votes
0
answers
81
views
0
answers
Comment: C: htseq-count with bam file not working
... You are right, doing so. ...
written 14 days ago by Amaranta_Remedios0
0
votes
0
answers
81
views
0
answers
htseq-count with bam file not working
... Hi everyone, I am trying to do htseq-count with an in house transcriptome annotation and for some reason is just not working. I get an output with 0 for all the quantifications. Any suggestions? I am running out of ideas.... Thanks !! samtools view file.bam | head K00311:84:HYCNTBBXX:1:222 ...
htseq written 14 days ago by Amaranta_Remedios0
0
votes
1
answer
111
views
1
answer
tblastn extend beyond homology region
... Hi, I am performing a very simple task. I got a protein sequence, with conserved domains and I am mapping this protein and domains to a genome. I found the analogous domain. However I would like to get 100 amino acids downstream and upstream the domain. Because its a tblastn I am a bit stuck on ho ...
blast written 6 months ago by Amaranta_Remedios0 • updated 6 months ago by maxime.policarpo100
3
votes
1
answer
209
views
1
answer
How to create fasta file
... Hi, So I wrote a simple code that doesn't seem to be working well and I don't know why. I have two files: seq.txt AAAATTTTTCCCCCGGGG AAAAAAAAAAAAAAAAAA TTTTTTTTTTTTTTTTTTTT .... Ids_to_add.txt ID_1 ID_2 ID_3 ..... I want a file fasta like this: >I ...
python written 8 months ago by Amaranta_Remedios0 • updated 8 months ago by ryanrratcliff20
0
votes
1
answer
187
views
1
answers
Comment: C: How to get multi mappers from bowtie 1
... I will try that, thanks for the answer ! ...
written 9 months ago by Amaranta_Remedios0
2
votes
1
answer
187
views
1
answer
How to get multi mappers from bowtie 1
... So I know there is a lot of info out there but I can't really work out who is "right". I am running **bowtie 1** using small RNA-Seq data and I don't have a problem getting only the unique mappers, bowtie can do that by adding the -m 1 option. However I still can't work out how to extract the multi ...
bowtie1 written 9 months ago by Amaranta_Remedios0 • updated 9 months ago by Carlo Yague5.0k
0
votes
1
answer
200
views
1
answers
Comment: C: coordinates mature microRNAs from precursors
... Got it ! I will run mirdeep2 again. Thanks ...
written 9 months ago by Amaranta_Remedios0
1
vote
1
answer
200
views
1
answer
coordinates mature microRNAs from precursors
... Hi, Recently I predicted MicroRNAs for a new specie using miRDeep2. However, the software only gives you the coordinates of the precursors, not the mature and star sequences. I was wondering if you have any suggestion about how to obtain these specific coordinates (mature/star). Thanks in advance, ...
micrornas mirdeep2 written 9 months ago by Amaranta_Remedios0 • updated 9 months ago by h.mon30k
0
votes
2
answers
266
views
2
answers
Comment: C: Remove character from Fasta IDs -- python
... Love it! But I am trying to learn python. Still super appreciated. ...
written 9 months ago by Amaranta_Remedios0
0
votes
2
answers
266
views
2
answers
Comment: C: Remove character from Fasta IDs -- python
... Thanks a lot, Perfect, I added my else statement too. In case this can help others. I am posting the final version. for record in records: if record.id.startswith('|'): record.id = record.id[1:] record.description = '' else: ...
written 9 months ago by Amaranta_Remedios0

Latest awards to Amaranta_Remedios

No awards yet. Soon to come :-)

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1200 users visited in the last hour