User: genomic8328

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genomic832810
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Posts by genomic8328

<prev • 7 results • page 1 of 1 • next >
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igraph page_rank miR2Pathway: Top ranked list, printing out pathway names
... I am one of the developers of the miR2Pathway tool and this program depends on igraph. Here is my github https://github.com/GenomicsPrograms/miR2Pathway/blob/master/miR2Pathway.R miR2Pathway is a PageRank-based method that can be used to rank disease risk of miRNA-mediated biological pathways. miR ...
pathway igraph mir2pathway page_rank written 5 months ago by genomic832810 • updated 5 months ago by Martin Morgan ♦♦ 22k
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igraph PoTRA error
... I need help troubleshooting the PoTRA program (which depends on igraph). The PoTRA's program functions, workspace file, etc can be found here: https://github.com/GenomicsPrograms/PoTRA/tree/master/PoTRA%20Code After running the following code: First paste the functions in PoTRA_R.txt into R, load ...
pathways graph igraph written 6 months ago by genomic832810
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miR2Pathway Finite Observations
... I am using the miR2Pathway package and have encountered an error message and warning messages that I need help troubleshooting. The finite observations warning is interesting to me, since it alludes to there being too few mirna listed. The input file contains 1,046 miRNAs that are being analyzed and ...
mirna parallel pathway analysis written 6 months ago by genomic832810
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Comment: C: graphite and PoTRa
... Dear Gabriele, Thank you for your response. After I removed the workspace object humanKEGG from the PoTRA-example-data.Rdata file, I changed the following code require(BiocGenerics) require(graph) require(graphite) require(igraph) see entire code https://github.com/GenomicsPrograms/PoTRA/blob/mas ...
written 6 months ago by genomic832810
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Answer: A: graphite and PoTRa
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written 6 months ago by genomic832810
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graphite and PoTRa
... Using R-devel for windows, I attempted to run the posted example script for the PoTRa R program, and one of its dependencies is the graphite bioconductor package (graphite is linked to the error).  PoTRa's functions, example data and example code, plus some detail can be found here: http://dinulab. ...
graphite potra written 6 months ago by genomic832810
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BiocParallel and CopywriteR Error
... I recently tried to use CopywriteR in Microsoft Azure cloud - Windows Server Datacenter Virtual Machine  (128 RAM and 16 cores) with R 3.3.2. Also my input data files: normal 12.67GB, tumor 11GB I received the following error: Error: 'bplapply' receive data failed: error reading from connection Ca ...
biocparallel bioconductor copywriter written 14 months ago by genomic832810 • updated 14 months ago by Martin Morgan ♦♦ 22k

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