Ecosyste.ms: Issues

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GitHub / cbielow/PTXQC issues and pull requests

#137 - [IDEA] isotope dot product

Issue - State: open - Opened by cbielow 4 months ago

#136 - Release 1.1.1

Pull Request - State: closed - Opened by cbielow 8 months ago

#135 - Use named `guide` argument

Pull Request - State: closed - Opened by teunbrand 10 months ago - 2 comments

#134 - new metric: frequencies of variable mods

Pull Request - State: closed - Opened by cbielow 11 months ago

#132 - [v1.0.17] update rmzqc

Pull Request - State: closed - Opened by cbielow 12 months ago

#131 - fixes #130 (UTF-8 BOM)

Pull Request - State: closed - Opened by cbielow over 1 year ago

#129 - qualUniform(x$ratio, x$count)

Issue - State: closed - Opened by mthang over 1 year ago - 2 comments

#127 - Contaminant recognition

Issue - State: closed - Opened by ofleitas over 1 year ago - 2 comments

#126 - Wrong locale only reported when evidence.txt is present

Issue - State: open - Opened by cbielow almost 2 years ago

#125 - Refactor to use rmzqc package

Pull Request - State: closed - Opened by cbielow about 2 years ago

#124 - use minmum from data for reporter ion plot

Pull Request - State: closed - Opened by cbielow about 2 years ago

#123 - [FEATURE] improve TMT/iTRAQ reporter intensity plot

Issue - State: closed - Opened by cbielow about 2 years ago - 1 comment

#122 - Add missing option

Pull Request - State: closed - Opened by czanetti about 2 years ago

#120 - Release preparation for 1.0.14

Pull Request - State: closed - Opened by cbielow about 2 years ago

#119 - MSMSScans TopNoverN plot shows equally high bars for all 'N'

Issue - State: closed - Opened by cbielow about 2 years ago - 6 comments

#117 - Mq 21 support

Pull Request - State: closed - Opened by cbielow about 2 years ago

#116 - Remove kableExtra package dependency

Pull Request - State: closed - Opened by cbielow over 2 years ago

#115 - Quitting from R template and can't generate template file

Issue - State: open - Opened by yuha6189 almost 3 years ago - 1 comment

#114 - fix request for mqpar.xml (for mzQC file) when processing mzTab

Pull Request - State: closed - Opened by cbielow almost 3 years ago

#113 - Release of version 1.0.12

Pull Request - State: closed - Opened by cbielow about 3 years ago

#112 - fixes #110 (only a single MSMS scan per Raw file)

Pull Request - State: closed - Opened by cbielow about 3 years ago

#111 - Fix legends

Pull Request - State: closed - Opened by cbielow about 3 years ago

#110 - Report generation fails

Issue - State: closed - Opened by cbielow about 3 years ago - 3 comments

#109 - Documentation and cosmetic fixes

Pull Request - State: closed - Opened by cbielow about 3 years ago

#108 - EVD: Top5 contaminants

Issue - State: closed - Opened by angelawu-wustl about 3 years ago - 6 comments

#107 - fix error when running exotic msmsscans file, where for any raw file,…

Pull Request - State: closed - Opened by cbielow about 3 years ago

#106 - PTXQC with MaxQuant results from timsTOF data

Issue - State: open - Opened by bidiman about 3 years ago - 1 comment

#105 - mzQC format support

Pull Request - State: closed - Opened by cbielow over 3 years ago

#104 - missed cleavages from evidence.txt

Pull Request - State: closed - Opened by pscheil over 3 years ago

#103 - 'match' requires vector arguments

Issue - State: closed - Opened by mtinti over 3 years ago - 9 comments

#102 - Decoy distribution is missing MSMS mass error plot

Issue - State: closed - Opened by cbielow over 3 years ago

#101 - PAR: parameters is missing important fields

Issue - State: closed - Opened by cbielow over 3 years ago

#100 - combined PR for MBR-fix and locale-feature

Pull Request - State: closed - Opened by cbielow over 3 years ago

#99 - Check current system locale (dot vs. comma. as decimal separator)

Pull Request - State: closed - Opened by cbielow over 3 years ago

#98 - HTML report checks MaxQuant locale settings (. vs ,)

Issue - State: closed - Opened by cbielow over 3 years ago

#97 - MBR metrics are missing

Issue - State: closed - Opened by cbielow over 3 years ago - 1 comment

#96 - stop createReport if charge is negative, write ggText in boxplotCompa…

Pull Request - State: closed - Opened by pscheil over 3 years ago

#95 - Error with pandoc 2.12

Issue - State: closed - Opened by jpfeuffer over 3 years ago - 2 comments

#94 - createReport should write a log file

Issue - State: closed - Opened by cbielow almost 4 years ago - 1 comment

#93 - PTXQC issue: hangs when Creating Report file

Issue - State: closed - Opened by Alxcho almost 4 years ago - 3 comments

#92 - License

Issue - State: closed - Opened by fabianegli almost 4 years ago - 5 comments

#91 - Wrong score for MSMSScans Intensity

Issue - State: closed - Opened by cbielow almost 4 years ago

#90 - MissedCleavages plot missing

Issue - State: closed - Opened by cbielow almost 4 years ago - 12 comments

#89 - Error pandoc

Issue - State: closed - Opened by DaliJarboui almost 4 years ago - 1 comment

#88 - mzQC support

Pull Request - State: closed - Opened by cbielow about 4 years ago - 2 comments

#87 - include createYaml function into createReport()

Pull Request - State: closed - Opened by koehlek99 about 4 years ago - 2 comments

#86 - Detect wrong language bug

Issue - State: closed - Opened by cbielow about 4 years ago - 1 comment

#85 - mzTabReader is still broken

Issue - State: closed - Opened by cbielow about 4 years ago

#84 - Implementation and Validation of mzQC metrics in PTXQC

Pull Request - State: closed - Opened by xchen98 about 4 years ago - 1 comment

#83 - New metric implementation - visualizing iRTs peptides

Issue - State: open - Opened by MiguelCos over 4 years ago - 5 comments

#82 - error: cannot open file `Rplots.pdf`

Issue - State: closed - Opened by MiguelCos over 4 years ago - 1 comment

#81 - MzTabReader broken

Issue - State: closed - Opened by cbielow over 4 years ago

#80 - QC metrics output as data frames

Issue - State: open - Opened by wyu over 4 years ago - 6 comments

#79 - [Feature request] Cluster mzTab-based report by assay/study variable

Issue - State: closed - Opened by jpfeuffer over 4 years ago - 1 comment

#78 - Weird formatting and character duplications in tables

Issue - State: closed - Opened by jpfeuffer over 4 years ago

#77 - mztab file exported from PD2.2 meet error in raw_filenames

Issue - State: closed - Opened by iszhi over 4 years ago - 4 comments

#76 - Plotly support

Pull Request - State: open - Opened by cbielow over 4 years ago

#75 - Pandoc document conversion failed with error 61

Issue - State: closed - Opened by mikulasekkamil over 4 years ago - 4 comments

#74 - [IDEA] check MS2 spectral quality

Issue - State: open - Opened by cbielow almost 5 years ago

#73 - Open ms mz tab exporter

Pull Request - State: closed - Opened by pscheil almost 5 years ago - 1 comment

#72 - Open ms mz tab exporter

Pull Request - State: closed - Opened by pscheil almost 5 years ago - 1 comment

#71 - Cannot make it run

Issue - State: closed - Opened by witszymanski almost 5 years ago - 3 comments

#70 - Is transferred

Pull Request - State: closed - Opened by pscheil almost 5 years ago

#69 - [FEATURE] MzTab support

Pull Request - State: closed - Opened by cbielow about 5 years ago

#68 - Permissive plotting

Pull Request - State: closed - Opened by pscheil about 5 years ago

#67 - Check input

Pull Request - State: closed - Opened by pscheil about 5 years ago - 1 comment

#66 - Upset

Pull Request - State: closed - Opened by pscheil over 5 years ago

#65 - namespace

Pull Request - State: closed - Opened by pscheil over 5 years ago

#64 - Tic

Pull Request - State: closed - Opened by dominikschm over 5 years ago - 1 comment

#63 - Rename columns

Pull Request - State: closed - Opened by jschmacht over 5 years ago

#62 - DragNdrop: Duplicated input given to "shortenString"

Issue - State: closed - Opened by Paulinette over 5 years ago - 4 comments

#61 - Qc metrics

Pull Request - State: closed - Opened by pscheil over 5 years ago - 1 comment

#60 - Missed cleavages

Pull Request - State: closed - Opened by pscheil over 5 years ago

#59 - Evd charge and rename columns

Pull Request - State: closed - Opened by pscheil over 5 years ago

#58 - Create report

Pull Request - State: closed - Opened by cbielow over 5 years ago

#57 - Create report

Pull Request - State: closed - Opened by pscheil over 5 years ago - 1 comment

#56 - Error in data.table(df_reps)

Issue - State: closed - Opened by marioernestovaldes over 5 years ago - 9 comments

#55 - Error in !df_msms$contaminant

Issue - State: closed - Opened by marioernestovaldes over 5 years ago - 2 comments
Labels: bug

#54 - PTXQC for Bruker's TimsTOF data

Issue - State: closed - Opened by fazeliniah over 5 years ago - 2 comments

#53 - How to use it??

Issue - State: closed - Opened by sorenwacker over 5 years ago - 4 comments

#52 - Installation in conda environment

Issue - State: closed - Opened by sorenwacker over 5 years ago - 1 comment

#51 - Crash on MSMSScans

Issue - State: closed - Opened by cbielow over 5 years ago

#48 - No report build

Issue - State: closed - Opened by fcsigloch about 6 years ago - 3 comments

#47 - Qc2018

Pull Request - State: closed - Opened by RHeimb over 6 years ago

#46 - funktioniert jetzt fuer MQ und mzTab Data (2Funktionen)

Pull Request - State: closed - Opened by genskeu over 6 years ago

#45 - Qc2018

Pull Request - State: closed - Opened by RHeimb over 6 years ago - 2 comments

#44 - 1) Anpassung der compute Funktion um mzTab file zu verwenden

Pull Request - State: closed - Opened by genskeu over 6 years ago

#43 - LCSn Does Not Return Longest Substring

Issue - State: closed - Opened by carpenitoThomas over 6 years ago - 2 comments

#42 - changed character

Pull Request - State: closed - Opened by trofimovamw over 6 years ago

#41 - Report generation fails when only a subset of files are available

Issue - State: closed - Opened by cbielow about 7 years ago - 1 comment

#40 - Custom contaminant plot error

Issue - State: closed - Opened by cbielow about 7 years ago - 1 comment

#39 - plots show wrong order of items in stacked barcharts

Issue - State: closed - Opened by cbielow about 7 years ago - 1 comment

#38 - [IDEA] Metric: Correlation between samples

Issue - State: open - Opened by cbielow about 7 years ago

#37 - [IDEA] Metric: Pareto chart of modifications

Issue - State: open - Opened by cbielow about 7 years ago