User: spiderdijon

gravatar for spiderdijon
spiderdijon20
Reputation:
20
Status:
New User
Location:
Australia
Last seen:
3 years, 8 months ago
Joined:
7 years, 6 months ago
Email:
c*****@gmail.com

about me

Posts by spiderdijon

<prev • 5 results • page 1 of 1 • next >
1
vote
1
answer
1.8k
views
1
answers
Answer: A: Without genome reference, how to find exon-exon junctions given isoforms
... I'm going to assume your organism has a reference genome, otherwise this is a different question all together. From a scan of the Trinity documentation, it looks like it gives you the assembled fasta sequences of your genes and transcripts. So to find the exon-exon junctions, you're going to need to ...
written 6.1 years ago by spiderdijon20
0
votes
1
answer
1.8k
views
1
answers
Comment: C: Without genome reference, how to find exon-exon junctions given isoforms
... What organism are you working with? ...
written 6.1 years ago by spiderdijon20
0
votes
1
answer
12k
views
1
answers
Comment: C: samtools: writing to standard output failed: Broken pipe
... Check that your disk-space isn't close to full ...
written 6.1 years ago by spiderdijon20
0
votes
1
answer
1.8k
views
1
answers
Comment: C: Without genome reference, how to find exon-exon junctions given isoforms
... I'm not sure exactly what you're trying to do. You want to detect non-canonical exon-exon junctions correct? What do you mean when provided with isoforms - you want to use the isoform's exons as a basis for the spice-junctions? Why do you need to do this without a reference?   ...
written 6.1 years ago by spiderdijon20
1
vote
3
answers
2.7k
views
3
answers
Answer: A: How to run MISO with ENSEMBL GTF if reads were aligned against UCSC genome
... The MISO documentation mentions that you can use any annotation, as long as you convert it to GFF3 format (http://miso.readthedocs.org/en/fastmiso/#answer10). You should make sure that the chromosome naming convention is the same as used in your BAM file. There should be no need to realign your sequ ...
written 6.1 years ago by spiderdijon20

Latest awards to spiderdijon

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: 1779 users visited in the last hour