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I've compiled a list of what seems to be the most useful clustering and enrichment methods for the output of OmicsIntegrator. Below are the methods that are most frequently used, and should be impleme…
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Hi,
We are using BioPortal’s ontology recommender, linked open vocabularies and aber-owl services to map the ImmPort’s tempaltes to OBI and other relevant ontologies. Based on our observation, most…
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# Adding support for PSIMI-TAB format to the Disease Variant Impact (DV-IMPACT) Database
## **Background**
[DV-IMPACT](http://dvimpact.baderlab.org/) is an online resource for the disease variants…
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I can't consistently reproduce this. It _seems to happen_ when the viewer widget is created but not immediately rendered - often the case with the the viewer that's displayed after we assign a forcefi…
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I'm at [international data week](http://internationaldataweek.org) this week. Lots of interesting discussion and things to think about!
This issue will be general notes and things I've seen this week…
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Dear HTMD users!
I am interesting to test various dimensionality reduction methods, as the alternative to PCA, for my set of MD trajectories of GPCR systems. I would like to cluster all trajectorie…
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Update the following URL to point to the GitHub repository of
the package you wish to submit to _Bioconductor_
- Repository: https://github.com/asrinivasan-oa/gread
Confirm the following by editing e…
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**Background**: The [CPTAC consotium](http://proteomics.cancer.gov/programs/cptacnetwork) has generated mass-spec proteomics data for [TCGA](tcga-data.nci.nih.gov) samples. cBioPortal supports integra…
jjgao updated
7 years ago
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**Background**: An OncoPrint is a concise and compact graphical summary of genomic alterations in multiple genes across a set of tumor samples. Rows represent genes, and columns represent samples. Gly…
jjgao updated
7 years ago
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Dear ParmEd user community,
I am new in working with ParmEd. I am trying to convert CHARMM topology file (psf) to AMBER (prmtop). I am writing in the interpreter:
> !!
py >>> import parmed as p…