User: aj123

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aj12380
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Posts by aj123

<prev • 71 results • page 1 of 8 • next >
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Answer: C: WGCNA package dependency error
... I was able to resolve this issue by using R Switch and terminal (Mac). Windows appears to have an easier way of doing it. ...
written 8 days ago by aj12380
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WGCNA package dependency error
... There seem to be issues with installing GO.db when I try to install the WGCNA package. The error im getting below seems to be very different from other types of error others are getting while doing the same: > Error: package or namespace load failed for ‘WGCNA’ in loadNamespace(i, c(lib.lo ...
software error R written 8 days ago by aj12380
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Matching gene ids in R
... I have two .csv files. I need to match the 1st rows IDs in one file with the 1st column IDs in another file. im trying this- If the first file contains a column named "ids" then i do this to extract the sample ids- first_file_samples <- first_data_frame$ids And for the second file, if all ...
R rna-seq written 9 days ago by aj12380 • updated 9 days ago by bkleiboeker10
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Comment: C: Roast vs GAGE
... modified to make question clearer. ...
written 2.5 years ago by aj12380
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Roast vs GAGE
... I am trying to better understand the fundamental difference between Roast and GAGE -what is the fundamental difference and on what basis do they calculate their P-values? ...
R pathyway rna-seq written 2.5 years ago by aj12380
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Comment: C: Expanding a case vs control analysis
... thanks for your response! I will def try exploring these avenues. This is basically case vs control samples (bam files) I have for a human disease. Just doing a DE analyses to see DE genes of interest. Hence was trying to see what other analyses/layers I could add to this. ...
written 2.6 years ago by aj12380
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Expanding a case vs control analysis
... Hi, Im currently doing a simple case vs control analysis on RNA Seq data. I have WGS and SNP data as well. I was wondering what are the different layers and additional analyses I could add on to my work? thanks! ...
R next-gen rna-seq snp written 2.6 years ago by aj12380
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RNA Seq pipeline
... Hi, Im trying to create a simple RNA Seq pipeline from fastqc to DE in python (or perl). I want to read in a configuration file with paired end data like this: Sample1 x_1.fastq x_2.fastq Sample 2 y_1.fastq y_2.fastq I would want to read it into an array and pull out each filename. P ...
perl python pipeline rna-seq sequencing written 4.6 years ago by aj12380 • updated 4.6 years ago by Frédéric Bigey290
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Comment: C: Protein interaction network
... ![enter image description here][1]This is for Mouse data. Yes, I am able to load the entire PPI data into Cytoscape. The data is in this form (attached picture). Interactor A and B are the gene names. [1]: http://s33.postimg.org/peyn8aoen/interaction_sample.jpg ...
written 4.6 years ago by aj12380
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Protein interaction network
... Hello, I have a list of genes for an organism. I want to pull out the first neighbor i.e the first protein/gene the organism is interacting with from the overall PPI network of the organism. Any suggestions on how I could do this? ...
ppi protein network cytoscape written 4.6 years ago by aj12380

Latest awards to aj123

Popular Question 8 months ago, created a question with more than 1,000 views. For Paired end alignment issue
Popular Question 8 months ago, created a question with more than 1,000 views. For Differential expression in cancer
Popular Question 8 months ago, created a question with more than 1,000 views. For Splicing affected DE genes
Popular Question 8 months ago, created a question with more than 1,000 views. For EdgeR for RNA-Seq
Popular Question 10 months ago, created a question with more than 1,000 views. For Gene Ontology mining from IDs
Great Question 2.5 years ago, created a question with more than 5,000 views. For Parse VCF file
Great Question 2.5 years ago, created a question with more than 5,000 views. For Bioinformatics/Biotech Firms In India
Popular Question 2.5 years ago, created a question with more than 1,000 views. For Gene Ontology mining from IDs
Popular Question 2.5 years ago, created a question with more than 1,000 views. For Differential expression in cancer
Popular Question 2.5 years ago, created a question with more than 1,000 views. For Splicing affected DE genes
Popular Question 2.5 years ago, created a question with more than 1,000 views. For EdgeR for RNA-Seq
Popular Question 2.5 years ago, created a question with more than 1,000 views. For GFF and Genome Fasta file
Popular Question 2.5 years ago, created a question with more than 1,000 views. For BWA alignment issue in iPlant
Popular Question 2.5 years ago, created a question with more than 1,000 views. For TCGS gene expression data
Popular Question 2.5 years ago, created a question with more than 1,000 views. For Parse VCF file
Popular Question 2.6 years ago, created a question with more than 1,000 views. For RNA Seq pipeline
Popular Question 4.2 years ago, created a question with more than 1,000 views. For RNA Seq pipeline
Popular Question 4.2 years ago, created a question with more than 1,000 views. For Gene Ontology mining from IDs
Popular Question 4.2 years ago, created a question with more than 1,000 views. For EdgeR for RNA-Seq
Popular Question 4.2 years ago, created a question with more than 1,000 views. For Parse VCF file
Popular Question 4.2 years ago, created a question with more than 1,000 views. For Graphs in R
Popular Question 4.2 years ago, created a question with more than 1,000 views. For Gene list for an organism
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Popular Question 4.2 years ago, created a question with more than 1,000 views. For Fastq dump error

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