User: mmokrejs

gravatar for mmokrejs
mmokrejs0
Reputation:
0
Status:
New User
Last seen:
5 months, 1 week ago
Joined:
1 year ago
Email:
m*******@fold.natur.cuni.cz

Profile information, website and location are not shown for new users.

This helps us discourage the inappropriate use of our site.

Posts by mmokrejs

<prev • 8 results • page 1 of 1 • next >
0
votes
0
answers
140
views
0
answers
ReportingTools: Error using packet 1 arguments must have same length
... Hi, I have some output from DESeq2 to be processed by ReportingTools. In thread https://support.bioconductor.org/p/115810/#115817 it turned out it is a ReportigTools issue. Would you please comment on this error, visible only in rendered figures? library(ReportingTools) desReport <- HTMLRe ...
reportingtools written 7 months ago by mmokrejs0
0
votes
1
answer
171
views
1
answers
Comment: C: DESeq2: Error using packet 1 arguments must have same length
... Thank you, Michael, I will open a new thread then. I added the ReportingTools tag but probably too late to notify its author. Would you please comment on these attempts, line by line? I am new to this and I do not really understand the underlying differences, hence the comments on lines commented o ...
written 7 months ago by mmokrejs0
0
votes
1
answer
171
views
1
answers
Comment: C: DESeq2: Error using packet 1 arguments must have same length
... > sessionInfo() R version 3.5.1 (2018-07-02) Platform: x86_64-pc-linux-gnu (64-bit) Running under: CentOS Linux 7 (Core) Matrix products: default BLAS: /apps/gentoo/usr/lib64/librefblas.so.3.7.0 LAPACK: /apps/gentoo/usr/lib64/libreflapack.so.3.7.0 locale: [1] C attached base packages: [1] sta ...
written 7 months ago by mmokrejs0
0
votes
1
answer
171
views
1
answer
DESeq2: Analyzing just two normal+tumour pairs
... Hi,   I have RNAseq from two cancer+normal cases. I used salmon and proceeded with DESeq2. I do get the ./results/ directory out but the PDF figures are broken. The error message for example in boxplot.ENSG00000077454.15.pdf states: "Error using packet 1 arguments must have same length". The X-axis ...
deseq2 reporting tools written 7 months ago by mmokrejs0
0
votes
1
answer
1.1k
views
1
answers
Comment: C: How to create tx2gene.gencode.v27.csv
... So here is what a friend helped me to stitch together:   wget ftp://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_human/release_28/gencode.v28.annotation.gtf.gz wget ftp://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_human/release_28/gencode.v28.annotation.gff3.gz wget ftp://ftp.ebi.ac.uk/pub/databa ...
written 7 months ago by mmokrejs0
0
votes
0
answers
272
views
0
answers
Comment: C: Rgraphviz installation fails in R with OpenBLAS
... I am having same issue here on Gentoo Linux with gcc-8.2.0. Although I do have system-wide grapviz-2.40.1-r1 installed through R-3.5.1 version 2.26.0 is being picked (while logs state 2.28.0). See https://gitlab.com/graphviz/graphviz/issues/1412 By switching to gcc-7.3.0 I can at least work around ...
written 7 months ago by mmokrejs0
0
votes
1
answer
1.1k
views
1
answers
Comment: C: How to create tx2gene.gencode.v27.csv
... Hi Michael, thank you for your kind answer and I am sorry for the delay in my response, I thought I will receive an email if someone replies. Indeed, I have tximport-1.2.0 installed on the server: $ R R version 3.5.1 (2018-07-02) -- "Feather Spray" Copyright (C) 2018 The R Foundation for Statist ...
written 10 months ago by mmokrejs0
1
vote
1
answer
1.1k
views
1
answer
How to create tx2gene.gencode.v27.csv
... Hi,    I am unable to follow up the tutorial at https://github.com/mikelove/tximport/blob/master/vignettes/tximport.Rmd I am getting: > library(readr) tx2gene <- read_csv(file.path(dir, "tx2gene.gencode.v27.csv")) Error: '/home/mmokrejs/R/x86_64-pc-linux-gnu-library/3.4/tximportData/ext ...
tximportdata written 13 months ago by mmokrejs0 • updated 13 months ago by Michael Love24k

Latest awards to mmokrejs

Popular Question 7 months ago, created a question with more than 1,000 views. For How to create tx2gene.gencode.v27.csv

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 205 users visited in the last hour