User: Ranan Jyoti Sarma

Reputation:
30
Status:
New User
Location:
Mizoram Univesity
Website:
https://www.linkedin.c...
Last seen:
6 days, 11 hours ago
Joined:
11 months ago
Email:
r***********@gmail.com

Posts by Ranan Jyoti Sarma

<prev • 10 results • page 1 of 1 • next >
1
vote
0
answers
88
views
0
answers
problem in creating ranked list for GSEApreranked gene enrichment
... I did cuffdiff analysis for my RNASeq data Now i want to use GSEAPreranked gene enrichment how to prepare inputfiles for GSEAPreranked analysis from cuffdiff output data. ...
rna-seq written 15 days ago by Ranan Jyoti Sarma30 • updated 13 days ago by sarath07bio0
0
votes
1
answer
181
views
1
answers
Comment: C: VisualMSI for MSI Calculation using NGS/WXS
... It is already well explained in the file. ...
written 17 days ago by Ranan Jyoti Sarma30
0
votes
0
answers
94
views
0
answers
Comment: C: Which genome files to use for STAR?
... You will get the reference genome here: https://data.broadinstitute.org/Trinity/CTAT_RESOURCE_LIB/ SOURCE: [Click here ---> https://github.com/STAR-Fusion/STAR-Fusion/wiki] ----> go to **Data Recource Required** ...
written 17 days ago by Ranan Jyoti Sarma30
0
votes
0
answers
92
views
0
answers
Comment: C: DE analysis of genes with different number of samples in Tumor and control group
... As your normal is too less compared to case, you may get biiased result..... Increase the number of Normal or lessen the number of case. Equal set is always preffered. ...
written 17 days ago by Ranan Jyoti Sarma30
1
vote
1
answer
181
views
1
answers
Comment: C: VisualMSI for MSI Calculation using NGS/WXS
... and yes ... you have to convert hg19 to hg38. Something wrong. It should not be like that. Try Using other tool: https://omictools.com/microsatellite-instability-detection-category ...
written 18 days ago by Ranan Jyoti Sarma30
0
votes
1
answer
181
views
1
answers
Comment: C: VisualMSI for MSI Calculation using NGS/WXS
... It is always better to use one version. Either hg19 or GRCh38. If you have hg38 then convert it to hg19 coordination system. ...
written 19 days ago by Ranan Jyoti Sarma30
0
votes
1
answer
181
views
1
answers
Comment: C: VisualMSI for MSI Calculation using NGS/WXS
... If you have saved then binary then do this: Suppose you saved the binary in "Download" (~/Home/Downloads) Folder using wget http://opengene.org/VisualMSI/visualmsi Go to Downloads and provide: sudo chmod 777 visualmsi sudo cp visualmsi /usr/local/bin Then Execute from anywhere. ...
written 19 days ago by Ranan Jyoti Sarma30
1
vote
4
answers
207
views
4
answers
Answer: A: very confused with GC bias
... This may help you. https://academic.oup.com/nar/article/40/10/e72/2411059 ...
written 19 days ago by Ranan Jyoti Sarma30
0
votes
1
answer
181
views
1
answers
Comment: C: VisualMSI for MSI Calculation using NGS/WXS
... Please go through the Target file generation: BED convert to tsv. https://github.com/OpenGene/VisualMSI/blob/master/README.md ...
written 19 days ago by Ranan Jyoti Sarma30
1
vote
1
answer
181
views
1
answers
Answer: A: VisualMSI for MSI Calculation using NGS/WXS
... First, install histlib: https://github.com/samtools/htslib/releases/download/1.9/htslib-1.9.tar.bz2 Extract it. ./configure make sudo make install Download it : git clone https://github.com/OpenGene/VisualMSI.git # build cd VisualMSI make # Install sudo make install ***************** ...
written 19 days ago by Ranan Jyoti Sarma30

Latest awards to Ranan Jyoti Sarma

Scholar 19 days ago, created an answer that has been accepted. For A: very confused with GC bias

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 805 users visited in the last hour