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hvaret committed Jun 13, 2016
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2 changes: 1 addition & 1 deletion DESCRIPTION
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Expand Up @@ -2,7 +2,7 @@ Package: SARTools
Type: Package
Title: Statistical Analysis of RNA-Seq Tools
Version: 1.3.1
Date: 2016-05-31
Date: 2016-06-13
Author: Marie-Agnes Dillies and Hugo Varet
Maintainer: Hugo Varet <[email protected]>
Depends: R (>= 3.3.0), DESeq2 (>= 1.12.0), edgeR (>= 3.12.0), xtable
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2 changes: 2 additions & 0 deletions NEWS
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@@ -1,6 +1,8 @@
CHANGES IN VERSION 1.3.1
------------------------
o Increased plot resolution to 300ppi
o New instructions to install SARTools with Conda
o Update of the citation of SARTools (PLoS One 2016)

CHANGES IN VERSION 1.3.0
------------------------
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2 changes: 1 addition & 1 deletion README.md
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Expand Up @@ -38,4 +38,4 @@ Please read the NEWS file to see the latest improvements!

About SARTools
--------------
The SARTools package has been developped at PF2 - Institut Pasteur by M.-A. Dillies and H. Varet ([email protected]). Thanks to cite H. Varet, J.-Y. Coppee and M.-A. Dillies, _SARTools: a DESeq2- and edgeR-based R pipeline for comprehensive differential analysis of RNA-seq data_, bioRxiv, 2015, doi: http://dx.doi.org/10.1101/021741 when using this tool for any analysis published.
The SARTools package has been developped at PF2 - Institut Pasteur by M.-A. Dillies and H. Varet ([email protected]). Thanks to cite H. Varet, L. Brillet-Guéguen, J.-Y. Coppee and M.-A. Dillies, _SARTools: A DESeq2- and EdgeR-Based R Pipeline for Comprehensive Differential Analysis of RNA-Seq Data_, PLoS One, 2016, doi: http://dx.doi.org/10.1371/journal.pone.0157022 when using this tool for any analysis published.
17 changes: 9 additions & 8 deletions inst/CITATION
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citEntry(entry = "article",
title = "SARTools: a DESeq2- and edgeR-based R pipeline for comprehensive differential analysis of RNA-seq data",
title = "SARTools: A DESeq2- and EdgeR-Based R Pipeline for Comprehensive Differential Analysis of RNA-Seq Data",
author = personList( as.person("Hugo Varet"),
as.person("Loraine Brillet-Guéguen"),
as.person("Jean-Yves Coppée"),
as.person("Marie-Agnès Dillies")),
year = 2015,
journal = "bioRxiv",
doi = "10.1101/021741",
url = "http://biorxiv.org/content/early/2015/06/30/021741",
year = 2016,
journal = "PLoS One",
doi = "10.1371/journal.pone.0157022",
url = "http://dx.doi.org/10.1371/journal.pone.0157022",
textVersion =
paste("Hugo Varet, Jean-Yves Coppée and Marie-Agnès Dillies (2015):",
"SARTools: a DESeq2- and edgeR-based R pipeline for comprehensive differential analysis of RNA-seq data.",
"bioRxiv, 2015, doi: http://dx.doi.org/10.1101/021741"))
paste("Hugo Varet, Loraine Brillet-Guéguen, Jean-Yves Coppée and Marie-Agnès Dillies (2016):",
"SARTools: A DESeq2- and EdgeR-Based R Pipeline for Comprehensive Differential Analysis of RNA-Seq Data.",
"PLoS One, 2016, doi: http://dx.doi.org/10.1371/journal.pone.0157022"))

2 changes: 1 addition & 1 deletion inst/report_DESeq2.rmd
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Expand Up @@ -8,7 +8,7 @@ Author: `r author`

Date: `r Sys.Date()`

The SARTools R package which generated this report has been developped at PF2 - Institut Pasteur by M.-A. Dillies and H. Varet ([email protected]). Thanks to cite H. Varet, J.-Y. Coppee and M.-A. Dillies, _SARTools: a DESeq2- and edgeR-based R pipeline for comprehensive differential analysis of RNA-seq data_, bioRxiv, 2015, doi: http://dx.doi.org/10.1101/021741 when using this tool for any analysis published.
The SARTools R package which generated this report has been developped at PF2 - Institut Pasteur by M.-A. Dillies and H. Varet ([email protected]). Thanks to cite H. Varet, L. Brillet-Guéguen, J.-Y. Coppee and M.-A. Dillies, _SARTools: A DESeq2- and EdgeR-Based R Pipeline for Comprehensive Differential Analysis of RNA-Seq Data_, PLoS One, 2016, doi: http://dx.doi.org/10.1371/journal.pone.0157022 when using this tool for any analysis published.

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2 changes: 1 addition & 1 deletion inst/report_edgeR.rmd
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Expand Up @@ -8,7 +8,7 @@ Author: `r author`

Date: `r Sys.Date()`

The SARTools R package which generated this report has been developped at PF2 - Institut Pasteur by M.-A. Dillies and H. Varet ([email protected]). Thanks to cite H. Varet, J.-Y. Coppee and M.-A. Dillies, _SARTools: a DESeq2- and edgeR-based R pipeline for comprehensive differential analysis of RNA-seq data_, bioRxiv, 2015, doi: http://dx.doi.org/10.1101/021741 when using this tool for any analysis published.
The SARTools R package which generated this report has been developped at PF2 - Institut Pasteur by M.-A. Dillies and H. Varet ([email protected]). Thanks to cite H. Varet, L. Brillet-Guéguen, J.-Y. Coppee and M.-A. Dillies, _SARTools: A DESeq2- and EdgeR-Based R Pipeline for Comprehensive Differential Analysis of RNA-Seq Data_, PLoS One, 2016, doi: http://dx.doi.org/10.1371/journal.pone.0157022 when using this tool for any analysis published.

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2 comments on commit b1da000

@yifangt
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@yifangt yifangt commented on b1da000 Jun 14, 2016 •
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Segfault!

Moved to Issues

@hvaret
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@hvaret hvaret commented on b1da000 Jun 15, 2016

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Dear Yifang,
I'm sorry I never met this bug. It is strange because you have the very last versions of R and SARTools. Is your Debian installation up to date? I would advice you to update all the Debian packages and then re-install R and all your packages. Could you please let me know if it works?
Best,
Hugo
PS: there is an "issue" page on GitHub where you can share this kind of problem

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