User: c.evang

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c.evang10
Reputation:
10
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New User
Location:
Italy
Last seen:
5 months ago
Joined:
1 year, 7 months ago
Email:
c******@unitus.it

Posts by c.evang

<prev • 14 results • page 1 of 2 • next >
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Comment: C: Error in running kissplice2reftranscriptome
... ​​Dear Leandro, below the google drive link where the input files are deposited: https://drive.google.com/open?id=0BxZ448pnAtJaTGpoNE9Cb2Y5bkE And this is the command-line I used for running k2rt: kissplice2reftranscriptome -b assemblychec095n10_okay_okalt_newnames.fasta.transdecoder.bed -k r ...
written 5 months ago by c.evang10
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Error in running kissplice2reftranscriptome
... Dear All and kissplice-users, I'm run into an error when running kissplice2reftranscriptome; the error was: Opening all files and formatting tables... Collecting data... Traceback (most recent call last): File "/usr/local/bin/kissplice2reftranscriptome", line 5, in p ...
k2rt snp kissplice written 5 months ago by c.evang10 • updated 4 months ago by vincent.lacroix40
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Error running KissDE
... Dear all, I run KissDE using the Kissplice (with replicates) output, but the following error occured: Error in paste(pathToFigs, \"/models.png\", sep = \"\"): object 'pathToFigs' not found\n An error occured, unable to fit models on data. Any suggestion? Thank you ...
kissde kissplice written 10 months ago by c.evang10
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Comment: C: Error in running "diffExpressedVariants" function in kissDE R package
... Dear Vincent.lacroix, I tried running kissplice using replicates, but another error occured while running kissDE: [1] "Error in paste(pathToFigs, \"/models.png\", sep = \"\"): object 'pathToFigs' not found\n An error occured, unable to fit models on data." Any suggestions? Thanks ...
written 10 months ago by c.evang10
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Comment: C: Error in running "diffExpressedVariants" function in kissDE R package
... Thank you very much vincent.lacroix. So I will repeat kisSplice using replicates and then kissDE. Thanks again Chiara ...
written 10 months ago by c.evang10
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Error in running "diffExpressedVariants" function in kissDE R package
... Dear all, I want to run kissDE R package on my set of SNPs, that I found using KisSplice software. I'm using this code: snpB<-kissplice2counts("results_all_reads_mDr_all_reads_WW_k25_coherents_type_0a.fa", pairedEnd=FALSE) conditions<-c("mDr","WW") resB<-diffExpressedVariants( ...
kissplice snp kissde written 10 months ago by c.evang10 • updated 7 months ago by vincent.lacroix40
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Comment: C: Error in running KisSplice_ks_debruijn4
... Hello, I downloaded the software version 2.4.0-p1 and now it seems running well. Thanks ...
written 11 months ago by c.evang10
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DESeq2 3-fatcor design and different interaction terms
... Hi, I am using DESeq2 to analyze differential expressed genes (DEGs) from counts generated by Illumina sequencing. I have a 3-factor experiment: - genotype (with 3 levels): A, B, and C, each with 6 biological replicates (3 for each treatment) - treatment (with 2 level): mDr (the treatment) ...
interactions deseq2 rna-seq multifactorial design written 11 months ago by c.evang10 • updated 11 months ago by genomax30k
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Comment: C: Error in running KisSplice_ks_debruijn4
... This is the kissplice_log_summary file: This is KisSplice, version 2.4.0 The command line was: /home/universita/kissplice-2.4.0/bin/kissplice -t 8 -k 25 -r all_reads_EcoB.fastq -o /home/universita/kissplice -d /home/universita/kissplice Using the read files: /home/universita/all_reads_E ...
written 12 months ago by c.evang10
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Error in running KisSplice_ks_debruijn4
... Dear All, I'm running KisSplice-2.4.0, but after minigraph construction I get the following error: "Problem with /path/to/kissplice/kissplice-2.4.0/libexec/kissplice/ks_debruijn4 >". Can anyone help me to solve the problem? Thanks Chiara ...
kissplice written 12 months ago by c.evang10 • updated 5 months ago by gao131yuan0

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