User: Dr.Animo
Dr.Animo • 10
- Reputation:
- 10
- Status:
- New User
- Location:
- Pakistan/Islamabad/COMSATS
- Last seen:
- 4 days, 16 hours ago
- Joined:
- 1 year, 1 month ago
- Email:
- m******@gmail.com
I am doing MS in Bioinformatics from COMSATS Islamabad. I have an interest in comparative genomics, metagenomics and sRNA identification by using in-silico methods. I have also some experience in these fields. I have also some experience in homology modeling of protein, motif analysis and data mining from the databases like NCBI, Ensembl and UCSC genome browser.
Posts by Dr.Animo
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... Thanks for the response.
I've fixed it the problem is due to `expt` ...
written 4 days ago by
Dr.Animo • 10
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... Hi everyone,
I am trying to perform DEG analysis. I've two samples each has 3 replicates (one is XR and other is YR) replicates are XR1,XR2,XR3 and YR1,YR2,YR3..
d<- DGEList(counts=as.matrix(raw.data[,2:7]), lib.size=library.sizes, group=expt)
d<- calcNormFactors(d)
At the following ...
written 4 days ago by
Dr.Animo • 10
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Comment:
C: viral genome assembly
... What about `V-GAP` assembly pipeline?
https://www.sciencedirect.com/science/article/pii/S0378111915012378
I could not find the pipeline that proposes the author in the article. If someone has this then please share it. ...
written 6 weeks ago by
Dr.Animo • 10
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Comment:
C: viral genome assembly
... I could not find any major difference by applying `mindepth`
...
written 6 weeks ago by
Dr.Animo • 10
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Comment:
C: viral genome assembly
... I've already assembled the reads with tadpole, the number of contigs decreased but they are very high.
mindepth=X
What is X here? ...
written 6 weeks ago by
Dr.Animo • 10
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1
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5 follow
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... Dear all,
I am trying to assemble a phage (virus) genome. I've checked the quality of the reads and mapped them to the host genome to remove the host genome reads.
Now I am trying to assemble the unmapped reads but the number of contigs is more than 1000. I have tried different kmer sizes and differ ...
written 6 weeks ago by
Dr.Animo • 10
• updated
6 weeks ago by
Mensur Dlakic • 2.9k
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... Hi,
I want to assemble the illumina reads by using unicycler. So, what parameters should I set for better assembly.
I ran a example reads, which are alredy assemble. I want to compare the results. I set the default parameters, but the difference between result is very large. So, can you help me?
1. ...
written 13 months ago by
Dr.Animo • 10
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