User: anu014

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anu014150
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India
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5 days, 12 hours ago
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3 years ago
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Posts by anu014

<prev • 132 results • page 1 of 14 • next >
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Vertices name in steinertree [R]
... Hello all, Can anyone tell me how to retain the name of vertices in steinertree package (R)? Below is the code I used. The final object SP (igraph object) is the one that is showing node names as 1,2,3.. library(igraph) library(SteinerNet) a <- read.table("inte ...
gene ppi graph written 13 days ago by anu014150
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Applying Steiner minimal tree algorithm in Cytoscape
... Hello Biostars! It's been quite a long time since I posted here. I hope you all are doing great. This time I need your help in finding sub-network in Protein-Protein Interaction networks (from STRINGdb) using steiner minimal tree algorithm. For this, I want a plugin that I can install directly on ...
gene ppi cytoscape written 16 days ago by anu014150 • updated 3 days ago by gary.bader0
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Neoantigen prediction Tools
... Hello everyone! Can anyone suggest me some tools for neoantigen prediction in Whole exome sequencing data? ...
next-gen alignment snp written 7 weeks ago by anu014150 • updated 7 weeks ago by Chris Miller20k
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Comment: C: Using wig2array from iSeeRNA
... My problem is partially solved. As right now I wanted to work on mm10. But how to do the same for hg38? iSeeRNA just has in-bulit files for hg19/mm9/mm10. ...
written 8 weeks ago by anu014150
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Using wig2array from iSeeRNA
... Hello Biostars, I want to identify lincRNAs from RNA-Seq data. For this purpose, first I ran cufflinks which gave me GTF to enter into iSeeRNA which in turn asked me to enter .conf file. For .conf file, I need to have .array file also. So can anyone tell me how to create .array file using wig2arr ...
genome next-gen rna-seq written 8 weeks ago by anu014150
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Comment: C: Cytoscape's plugin 'stringApp' error
... Yes, that's it! Thanks xanderpico. ...
written 9 weeks ago by anu014150
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Cytoscape's plugin 'stringApp' error
... Hello Biostars, Today, I'm doing network analysis using Cytoscape. I installed 'stringApp' plugin for getting STRINGDb network. After adding 'gene symbol' list in it, I ran strinApp. As a result, got node, edge and network text files. The node file I got contains those genes also which I never e ...
software error gene cytoscape written 10 weeks ago by anu014150 • updated 10 weeks ago by xanderpico150
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Comment: C: Removal of ERCC spike-in in RNA-Seq
... Hi @Devon . What if the data is single cell RNA-seq? ...
written 11 weeks ago by anu014150
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Installing Seurat for scRNA
... Hello Biostars, Can anyone tell how to escape this error encountered during installation of Seurat (https://cran.r-project.org/web/packages/Seurat/index.html)?: command: R CMD INSTALL httpuv (httpuv is dependency for Seurat) /usr/local/lib/R/etc/Makeconf:168: recipe for target 'callbackq ...
software error R rna-seq written 11 weeks ago by anu014150 • updated 11 weeks ago by genomax54k
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Comment: C: NovaSeq data analysis
... Hi Devon. Sorry for the late reply. It's metagenomics data (shortgun sequencing; 2 X 150 paired end data). ...
written 12 weeks ago by anu014150

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Popular Question 23 days ago, created a question with more than 1,000 views. For Extension size problem in MACS2
Popular Question 5 weeks ago, created a question with more than 1,000 views. For How to create 12.8 billion unique alphanumeric strings of length ranging from 2-6?
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