User: jozs2019
jozs2019 • 0
- Reputation:
- 0
- Status:
- New User
- Last seen:
- 4 months, 1 week ago
- Joined:
- 6 months, 1 week ago
- Email:
- j*******@uni.sydney.edu.au
Profile information, website and location are not shown for new users.
This helps us discourage the inappropriate use of our site.
Posts by jozs2019
<prev
• 5 results •
page 1 of 1 •
next >
0
votes
1
answer
276
views
1
answers
... Understood! I wrote this sed script:
sed 's|.1 |/1 |g' reads_suffixes_1.fastq
... and it seems to have worked (checking the head and tail again). Fingers crossed that assembly goes better this time, and thanks for your help! ...
written 5 months ago by
jozs2019 • 0
0
votes
1
answer
276
views
1
answers
... Thanks for clarifying, benv!
The first 10 lines of read 1 file:
@SRR960028.1.1 FCC0H3RACXX:5:1101:1479:2095 length=150
TNAGTGAAGGACACCGCTGGATAAAGAATAAAAGGAGATCTTGACAAAAAGAAAAAAGAGGACCTTCAAAAGTAAGGCAAGAAGAGGAGTGGTGAGTTTTCTTATAAATATTAAAAATGGGAGCTAGCAACAGTCGCTTGCCTTTTGTAT
+SRR960028.1.1 F ...
written 5 months ago by
jozs2019 • 0
2
votes
1
answer
276
views
1
answer
... Hello,
I'm trying to assemble contigs from a set of paired end reads, denoted as SRR960028_1.fasta and SRR960028_2.fasta. I'm running ABySS on my university's HPC facility. When I run ABySS it terminates early. The line of code itself (within the PBS file) is:
abyss-pe name=abyss_test1 k=63 in ...
0
votes
1
answer
273
views
1
answers
... I had a look at the file, and as you said, line 745672 was truncated in length. It was also the final line of a fastq file that should have had more lines in it. I have the feeling it was a download problem rather than anything else, it's happened in the past that my fastq files have been truncated ...
written 6 months ago by
jozs2019 • 0
1
vote
1
answer
273
views
1
answer
... Hello!
I'm trying to use ABySS 1.9.0 to assemble set of genomic paired end reads. I'm doing this on my university's HPC with parallel processing. In my PBS script, I use:
abyss-pe name=abyss_test1 k=63 in='SRR960028_1.fastq SRR960028_2.fastq' v=-v
Unfortunately, ABySS terminates quite quickly aft ...
Latest awards to jozs2019
No awards yet. Soon to come :-)
Use of this site constitutes acceptance of our User
Agreement
and Privacy
Policy.
Powered by Biostar
version 2.3.0
Traffic: 555 users visited in the last hour