User: jmah

gravatar for jmah
jmah10
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15 hours ago
Joined:
2 years, 12 months ago
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j***@ualberta.ca

Posts by jmah

<prev • 24 results • page 1 of 3 • next >
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Comment: C: GO slimming to specific parent term
... Thanks that looks perfect! I'll give it a try :) ...
written 25 days ago by jmah10
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GO slimming to specific parent term
... GO slimming allows you to trace back a child GO term to a broader, parent term. Is there a package (preferably R) that allows you to choose which parent you want to trace back to? i.e. For a set of GO IDs, I want to find all the ones that fall under the umbrella of, for example, "transcription regul ...
parent child slimming gene ontology go written 26 days ago by jmah10 • updated 25 days ago by Jean-Karim Heriche20k
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Comment: C: Go Partition Database or another like tool
... I too am very interested in this. Preferably, I'm looking for an R package or other similar software package rather than an html site though. Any luck? If I find something I will post back and let you know. ...
written 4 weeks ago by jmah10
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SynChro input files
... I'm trying to use SynChro, a program to analyze synteny. It uses CHROnicle to make 3 input files which it creates from Genbank .dat files or EMBL .embl files. I cannot find either of these files as provided by Genbank or EMBL. However, Genbank provides a .gbff file that seems to be the current "Gen ...
file conversion synchro written 6 months ago by jmah10
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SSE for Kmodes
... Is it possible to find the sum of squared errors for categorical data when using kmodes? Does this even make sense statistically for categorical data? ...
statistics written 7 months ago by jmah10
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Comment: C: Cluster plots from categorical clustering
... I'm not trying to analyze traditional expression-based single cell RNAseq data. I just put that in so people know it's a biology-based question. Sorry, I realize now that that was probably pretty confusing. ...
written 8 months ago by jmah10
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Cluster plots from categorical clustering
... Hi, I'm trying to analyze some single cell seq data. I have data set consisting of sets/groups of categorical data. eg. A { a,b,c,d} B {b,c,f,g} C {e,t,y,g} I have been trying to find an R package to cluster these eg. would A+B fall in the same cluster while C clusters separately? I envision som ...
R clustering written 8 months ago by jmah10
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Comment: C: GO enrichment - interpreting broad terms
... Thanks! I will look into topGO. It sounds pretty close to what I'm interested in. ...
written 2.1 years ago by jmah10
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Comment: C: GO enrichment - interpreting broad terms
... Thanks for pointing this out! ...
written 2.1 years ago by jmah10
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GO enrichment - interpreting broad terms
... Hi all, Looking at my GO enrichment analysis I see many very general terms eg. multicellular organismal process. How exactly does this get interpreted? Does this mean that the collection of proteins did not provide enough resolution to say that there was a more specific process going on? From a li ...
gene ontology go written 2.1 years ago by jmah10 • updated 2.1 years ago by Chirag Parsania1.5k

Latest awards to jmah

Popular Question 5 months ago, created a question with more than 1,000 views. For HMMER error: Unrecognized format with Pfam-A.hmm
Popular Question 5 months ago, created a question with more than 1,000 views. For GO enrichment - interpreting broad terms
Popular Question 2.1 years ago, created a question with more than 1,000 views. For HMMER error: Unrecognized format with Pfam-A.hmm
Scholar 2.2 years ago, created an answer that has been accepted. For A: HMMER error: Unrecognized format with Pfam-A.hmm

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