User: Rahul

gravatar for Rahul
Rahul30
Reputation:
30
Status:
New User
Location:
India
Last seen:
3 months ago
Joined:
4 years, 10 months ago
Email:
r*********@gmail.com

Posts by Rahul

<prev • 44 results • page 1 of 5 • next >
0
votes
0
answers
250
views
0
answers
Comment: C: SOAPdenovo2 vs ABySS
... I have used both assemblers, in my case I got better assembly through Abyss assembler ...
written 3 months ago by Rahul30
5
votes
0
answers
197
views
0
answers
Genome size estimation using Kmergenie
... Hello,Can I use kmergenie for genome size estimation? https://gatb.inria.fr/software/kmergenie/ Regards rahul ...
genome assembly next-gen sequencing written 3 months ago by Rahul30 • updated 9 weeks ago by Biostar ♦♦ 20
0
votes
1
answer
581
views
1
answers
Comment: C: Nextera pair end adapter cleaning
... thank you very much for your comment. After using inbuilt nextera adapters, I got rid of all nextera adapters from lib. But still, it showing illumina universal adapters and solid small RNA adapters in lib. Can you please suggest me the possible trick to remove it. Thanks ...
written 15 months ago by Rahul30
3
votes
1
answer
581
views
1
answer
Nextera pair end adapter cleaning
... Can I use Nextera pair end adapter option in Galaxy Trimmomatic program for cleaning my illumina Nextera 500 transcriptome reads? or else I have to use Netera 500 adapter for cleaning lib. ...
assembly rna-seq written 15 months ago by Rahul30 • updated 15 months ago by Jennifer Hillman Jackson390
2
votes
1
answer
1.4k
views
1
answer
LOCAL BLAST evalue problem
... Hello, I am using local blastx and giving cut off e value of 1.0e-5, but still e value more than 1 is appearing in result.Any suggestions are welcome. blastx -query /home/manish/ncbi/query/SR51.fasta -db /home/manish/ncbi/DB/plazapro2/plazapro2 -out SR51.txt -evalue 1.0e-5 -outfmt 6 -max ...
blast ngs written 2.6 years ago by Rahul30 • updated 2.6 years ago by theobroma221.1k
0
votes
3
answers
3.0k
views
3
answers
Comment: C: CEGMA report meaning
... Thanks for your comments.I did not check the contamination.but I will check and remove it. Even I did not cut the starting bases from raw end as there was noise upto 12bp.I tried with cutting 12 bp earlier but the results were very worse. ...
written 2.8 years ago by Rahul30
0
votes
3
answers
3.0k
views
3
answers
Comment: C: CEGMA report meaning
... Actually I have downloaded pair end RNA seq reads SRA349650 for assembly. reads were cleaned by trimmomatics:- adapter cleaning,q20, max read length 30bp. Assembled by Trinity with Group pairs distance- 500 bp,path reinforcement:- 50bp,min legth-200bp, assembled sequences were used for cap3 :- overl ...
written 2.8 years ago by Rahul30
0
votes
3
answers
3.0k
views
3
answers
Comment: C: CEGMA report meaning
... Thanks for your suggestion.I have done busco and got following result. Is there any cut off completeness value for Busco . Completeness Assessment Results: Total # of core genes queried: 429 # of core genes detected Complete: 223 (51.98%) Compl ...
written 2.8 years ago by Rahul30
0
votes
3
answers
3.0k
views
3
answers
Comment: C: CEGMA report meaning
... Thanks for your suggestion.I have done busco and got following result. Is there any cut off completeness value for Busco . Completeness Assessment Results: Total # of core genes queried: 429 # of core genes detected Complete: 223 (51.98%) Compl ...
written 2.8 years ago by Rahul30
0
votes
3
answers
3.0k
views
3
answers
Comment: C: CEGMA report meaning
... is there any ideal cut off completeness value for transcriptome? can we combine complete and partial detected gene and represent.I have got cegma result for transcriptome, but don’t know whether this following result is acceptable. I would be very grateful if you could comment on my problem. COMPLE ...
written 2.8 years ago by Rahul30

Latest awards to Rahul

Popular Question 13 months ago, created a question with more than 1,000 views. For RNA seq assembly and CEGMA
Popular Question 13 months ago, created a question with more than 1,000 views. For RNA seq FASTX quality trimming
Popular Question 13 months ago, created a question with more than 1,000 views. For regarding to Fastqc and SRA file format
Popular Question 13 months ago, created a question with more than 1,000 views. For Kmergenie histogram file
Popular Question 2.5 years ago, created a question with more than 1,000 views. For CD-HIT-EST and CAP3
Popular Question 2.5 years ago, created a question with more than 1,000 views. For RNA seq FASTX quality trimming
Popular Question 2.5 years ago, created a question with more than 1,000 views. For regarding to Fastqc and SRA file format
Popular Question 2.5 years ago, created a question with more than 1,000 views. For Kmergenie histogram file
Popular Question 2.5 years ago, created a question with more than 1,000 views. For SOAP denovo trans
Popular Question 2.9 years ago, created a question with more than 1,000 views. For Mauve Genome Alignment software
Popular Question 3.2 years ago, created a question with more than 1,000 views. For Kmergenie histogram file
Supporter 3.9 years ago, voted at least 25 times.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1782 users visited in the last hour