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imbforge/NGSpipe2go 13

a set of NGS pipelines

ssayols/GPSskyrunners 5

visualize GPX tracks on a shiny app

ssayols/bioinformatics 1

A collection of bioinformatics related knowledge

imbforge/dataMiner 0

Data exploration and visualization

ssayols/awesome-awesomeness 0

A curated list of awesome awesomeness

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volume keys now have a precision of 5%

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screen layout should run on connected but not active devices also

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frankRuehle

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add possibility to generate txdb object from gtf file in diffbind2.R

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update ChIP-Seq description and links in flowchart

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disable redshift

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change screenlayout at home

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Nitesh Turaga

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bump x.y.z version to even y prior to creation of RELEASE_3_14 branch

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Nitesh Turaga

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bump x.y.z version to odd y following creation of RELEASE_3_14 branch

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Sergi Sayols Puig

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Merge remote-tracking branch 'upstream/master'

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deprecate org.Pf.plasmo.db

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deprecate org.Pf.plasmo.db

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Nitesh Turaga

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bump x.y.z version to even y prior to creation of RELEASE_3_14 branch

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Nitesh Turaga

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bump x.y.z version to odd y following creation of RELEASE_3_14 branch

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ankbusch

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corrected STAR parameter specifying allowed mismatches

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ankbusch

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gene_type optimization smallRNAseq

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Sergi Sayols Puig

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Merge branch 'devel' into 'master' Monthly sync between master and devel See merge request imbforge/NGSpipe2go!47

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Sergi Sayols Puig

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Merge branch 'master' into devel

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Sergi Sayols Puig

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update chipseq testdata

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make upsetplot tool robust to unexpected input

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ankbusch

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bringing smallRNAseq pipeline up-to-date

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improved FastQC labels in RNAseq report

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ankbusch

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catch error if no enriched GO term

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removed old miRNA pipeline

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ankbusch

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smallRNA report: fix when no targets file given

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Sergi Sayols Puig

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prevent crash if exceeds sheet name length limit

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fix error when object belongs to multiple classes. Fix indentation.

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frankRuehle

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minor fix in settings overview table

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frankRuehle

commit sha 82b3f2b888a967dc90840da85c2f666daa366104

fix bug introduced by ChIPseeker readPeakFile function which reads Macs2 xls files as 0-based instead of 1-based. Additionally, update BlackList_Filter.R to export the blacklist filtered peak files with same column names as the original peaks file and simplify ChIPhelper.init function in ChIP.shinyrep.helpers.R and upsetPlot.R

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Sergi Sayols Puig

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add end of string marker to sample name

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Sergi Sayols Puig

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GO_Enrichment analysis should not break if no enriched terms were found

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ankbusch

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various optimizations to increase flexiblity of smallRNA pipeline

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Sergi Sayols Puig

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fix bioconductor transcript db

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Sivarajan Karunanithi

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Fix: enables the contrast name to be different than the contrast column

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fix crash when no differential peaks

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ankbusch

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README file added for smallRNA pipeline

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Sergi Sayols Puig

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reqrite how TXDB is loaded when supplied as a bioconductor package

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ankbusch

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proper FastQC labels in RNAseq report when no targets file given

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Sergi Sayols Puig

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change picard alias

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add R spin template

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make the report robust to images not generated in the GO enrichment section

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ankbusch

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proper FastQC labels in RNAseq report when no targets file given

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reqrite how TXDB is loaded when supplied as a bioconductor package

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ankbusch

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README file added for smallRNA pipeline

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Sergi Sayols Puig

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fix crash when no differential peaks

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Sivarajan Karunanithi

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Fix: enables the contrast name to be different than the contrast column

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fix bioconductor transcript db

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ankbusch

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various optimizations to increase flexiblity of smallRNA pipeline

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Sergi Sayols Puig

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GO_Enrichment analysis should not break if no enriched terms were found

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add end of string marker to sample name

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frankRuehle

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minor fix in settings overview table

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frankRuehle

commit sha 82b3f2b888a967dc90840da85c2f666daa366104

fix bug introduced by ChIPseeker readPeakFile function which reads Macs2 xls files as 0-based instead of 1-based. Additionally, update BlackList_Filter.R to export the blacklist filtered peak files with same column names as the original peaks file and simplify ChIPhelper.init function in ChIP.shinyrep.helpers.R and upsetPlot.R

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autostart seadrive, no dropbox, no teams

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fix error when object belongs to multiple classes. Fix indentation.

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