User: Aishwarya.Kulkarni

Reputation:
30
Status:
New User
Location:
United States
Last seen:
5 years, 11 months ago
Joined:
6 years, 3 months ago
Email:
A*****************@cchmc.org

Posts by Aishwarya.Kulkarni

<prev • 25 results • page 2 of 3 • next >
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PWM scanning using R
... Hi I want to scan the whole genome of mouse and human using a PWM, which tool/R package would be the most efficient one to use? Thanks ...
R pwm written 6.0 years ago by Aishwarya.Kulkarni30 • updated 6.0 years ago by Michael Dondrup47k
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Comment: C: unable to find an inherited method for function matchPWM for signature "list"mat
... How do I convert a fasta sequence into DNAstring Object ...
written 6.0 years ago by Aishwarya.Kulkarni30
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Comment: C: unable to find an inherited method for function matchPWM for signature "list"mat
... Ok thank you so much. ...
written 6.0 years ago by Aishwarya.Kulkarni30
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Comment: C: unable to find an inherited method for function matchPWM for signature "list"mat
... > class(pwm) [1] "matrix"   > class(seq) [1] "list"   ...
written 6.0 years ago by Aishwarya.Kulkarni30
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unable to find an inherited method for function matchPWM for signature "list"match
... Hi I am trying to use the function matchPWM which needs the pwm, sequence and the min score cutoff as the arguments, I am giving the pwm and seq as follows: >matchPWM(pwm, seq, min.score="60%") and it is throwing me an error: unable to find an inherited method for function âmatchPWM for signa ...
R biostrings written 6.0 years ago by Aishwarya.Kulkarni30 • updated 6.0 years ago by Devon Ryan96k
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Tool to indentify CTCF boundaries
... Is there a tool which would give the pairwise CTCF boundaries around the genes, in order to identify the insulated area upstream of the gene. ...
ctcf boundaries written 6.1 years ago by Aishwarya.Kulkarni30
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Comment: C: Adding a custom track to a current session UCSC genome browser
... When I add the custom track and upload it on a browser, it takes me to a default browser session and not the session that I am working in. ...
written 6.1 years ago by Aishwarya.Kulkarni30
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Adding a custom track to a current session UCSC genome browser
... Hi, I have a session in UCSC that I am working in. I am trying to add a new custom track to the session, however I am unable to do so, can someone please guide me with it? Thanks ...
customtracks ucsc written 6.1 years ago by Aishwarya.Kulkarni30 • updated 6.1 years ago by Alex Reynolds30k
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FANTOM5 Promoter Atlas
... Hi All, I went through this paper on promoter atlas in FANTOM5 http://www.nature.com/nature/journal/v507/n7493/full/nature13182.html#the-fantom5-promoter-atlas , my question is that do they have cell wise CAGE dataset or is it global , as I cannot see the cell wise CAGE expression on their website. ...
fantom5 promotor atlas written 6.1 years ago by Aishwarya.Kulkarni30 • updated 5.6 years ago by R. Taylor Raborn290
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Bedgraph to bed file conversion
... Hi I am using a GEO dataset with Chip Seq experiments and it has an uploaded bedgraph file and since I need to use bed files for my analysis, is there a way to convert a bedgrpah to bed , also I don't quiet understand the difference between both. ...
bedgraph bed written 6.2 years ago by Aishwarya.Kulkarni30 • updated 6.2 years ago by Alex Reynolds30k

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