User: deepti1rao

gravatar for deepti1rao
deepti1rao0
Reputation:
0
Status:
New User
Last seen:
2 weeks ago
Joined:
8 months, 3 weeks ago
Email:
d*********@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 deepti1rao

<prev • 43 results • page 1 of 5 • next >
0
votes
0
answers
78
views
0
answers
kmergenie input forward and reverse reads
... How can paired end reads from 2 separate files be given as input to kmergenie? I do not see such an option. Shouldn't kmers be estimated for the entire set of data (forward and reverse)? ...
kmergenie paired end kmer written 6 weeks ago by deepti1rao0
0
votes
0
answers
90
views
0
answers
Annotation of rice contigs
... How can I go about annotating contigs of a rice genome? Can I simply do a BLAST search, considering that japonica rice is already annotated? Please give leads on any easy to install and use software. ...
annotation written 6 weeks ago by deepti1rao0
0
votes
3
answers
9.2k
views
3
answers
Comment: C: Trimming fastq with quality
... How to trim reads less than phred score 20 using seqtk? What does the default of 0.05 mean in terms of phred score? (-q FLOAT error rate threshold (disabled by -b/-e) [0.05]) ...
written 7 weeks ago by deepti1rao0
0
votes
1
answer
206
views
1
answers
Comment: C: bbduk for pre-processing
... Why have I lost bases with quality scores 20-32 as you can see in the uploaded pictures? How big is that window which is considered while looking for the avg quality? ...
written 12 weeks ago by deepti1rao0
0
votes
1
answer
194
views
1
answers
Comment: C: Insert size provided by bbmerge
... So there's an overlap of 50 bp between the mates. ...
written 12 weeks ago by deepti1rao0
0
votes
1
answer
194
views
1
answers
Comment: C: Insert size provided by bbmerge
... I went through this Sej.I want to know how I can have such small insert sizes if I have reads which are 150 each. ...
written 12 weeks ago by deepti1rao0
0
votes
1
answer
194
views
1
answer
Insert size provided by bbmerge
... My illumina paired end reads are 150 bases long. I ran bbmerge to check the insert size. Following is the link for the screen shot. https://ibb.co/gpySf6 How can I have an avg insert size of 243 and a maximum of 291 when my reads themselves are 300 (2*150)? Does insert size here mean the inner d ...
bbmerge insert written 12 weeks ago by deepti1rao0 • updated 12 weeks ago by genomax42k
0
votes
1
answer
206
views
1
answers
Comment: A: bbduk for pre-processing
... Links for raw and trimmed reads fastqc report: https://ibb.co/kTMAHm https://ibb.co/jwcsxm ...
written 12 weeks ago by deepti1rao0
0
votes
1
answer
206
views
1
answer
bbduk for pre-processing
... Please look at my raw and pre-processed reads. Pre-processing was done with bbduk. Parameters were as follows: qtrim=r trimq=20 Why is it trimming so severely for min Q 20? Can I change something? ...
reads pre-processing bbduk bbmap written 12 weeks ago by deepti1rao0 • updated 12 weeks ago by genomax42k
0
votes
2
answers
222
views
2
answers
Comment: A: Trimming reads with prinseq
... My reads are 150 bases long. Chan, do you suggest 6 as the sliding window? How does one decide? ...
written 3 months ago by deepti1rao0

Latest awards to deepti1rao

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: 1165 users visited in the last hour