Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / biocore/q2-qemistree issues and pull requests

#158 - Syntax errors in _fingerprint.py

Issue - State: open - Opened by Samiloffe 10 months ago - 1 comment

#157 - Error with command qiime qemistree make-hierarchy

Issue - State: open - Opened by anani-a-missinou 11 months ago - 3 comments

#156 - Is qemistree working at the moment?

Issue - State: open - Opened by typewritermonkey 12 months ago

#155 - Update Qemistree - Sirius 5

Pull Request - State: open - Opened by helenamrusso over 1 year ago - 2 comments

#154 - predict-fingerprints takes so much time, it is normal?

Issue - State: open - Opened by ebervilla almost 2 years ago - 4 comments

#153 - Do the GNPS website for Qemistree not works now?

Issue - State: open - Opened by kechen1984 over 2 years ago - 2 comments

#151 - running the demo pipeline

Issue - State: closed - Opened by MuBulut almost 3 years ago - 2 comments

#150 - Updated codes for Sirius 4.8.2

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

#149 - Wighted vs unweighted UniFrac strong difference

Issue - State: open - Opened by ArnaudGaudry over 3 years ago - 3 comments

#148 - Update plugin_setup.py

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

#147 - Update _fingerprint.py

Pull Request - State: closed - Opened by helenamrusso over 3 years ago - 4 comments

#146 - Update _process_fingerprint.py

Pull Request - State: closed - Opened by helenamrusso over 3 years ago - 1 comment

#145 - Updating Qemistree so it runs from SIRIUS workspace and generic input files

Issue - State: open - Opened by lfnothias over 3 years ago - 6 comments

#144 - Update maxmz range in compute fragmentation trees

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

#143 - Maximum m/z in compute-fragmentation-trees

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

#142 - install Qemistree error

Issue - State: open - Opened by jeep3 over 3 years ago - 1 comment

#141 - installing with conda

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

#140 - New release

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

#139 - Remove the plot action in favor of q2-empress

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

#138 - iTOL API requires key

Issue - State: closed - Opened by askerdb about 4 years ago - 3 comments

#137 - Tree generation on molecular formulas alone

Issue - State: open - Opened by mortonjt about 4 years ago

#136 - Update source to the latest version of Sirius 4.4.29+

Issue - State: closed - Opened by anupriyatripathi about 4 years ago - 2 comments
Labels: help wanted

#135 - Classyfire updates

Pull Request - State: closed - Opened by anupriyatripathi over 4 years ago - 1 comment

#133 - update classyfire API

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

#132 - Pie chart support

Issue - State: closed - Opened by anupriyatripathi over 4 years ago
Labels: enhancement, help wanted

#131 - Adds MGF file validation on import

Pull Request - State: closed - Opened by ElDeveloper over 4 years ago - 1 comment

#130 - make plot importable

Pull Request - State: closed - Opened by anupriyatripathi over 4 years ago

#129 - Add QC module

Issue - State: open - Opened by anupriyatripathi over 4 years ago - 3 comments
Labels: enhancement

#127 - Classyfire updates

Pull Request - State: closed - Opened by anupriyatripathi over 4 years ago

#126 - modify stephs doc PR

Pull Request - State: closed - Opened by anupriyatripathi over 4 years ago

#125 - Gfop fixes

Pull Request - State: closed - Opened by anupriyatripathi over 4 years ago - 1 comment

#124 - add FEATUREDATA.md

Issue - State: open - Opened by anupriyatripathi over 4 years ago
Labels: enhancement

#123 - add feature id to tree tips

Issue - State: open - Opened by anupriyatripathi over 4 years ago
Labels: good first issue

#122 - Updated the README.md file to have instructions on how to use the new plot plugin

Pull Request - State: closed - Opened by stephramos17 over 4 years ago - 2 comments

#121 - Clusterinfo

Pull Request - State: closed - Opened by anupriyatripathi over 4 years ago - 1 comment

#120 - make feature table normalization optional

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

#119 - replaces nans with 'missing'

Pull Request - State: closed - Opened by anupriyatripathi over 4 years ago - 1 comment

#118 - BUG: Fix a downloading bug

Pull Request - State: closed - Opened by ElDeveloper over 4 years ago

#117 - tsv to txt

Pull Request - State: closed - Opened by anupriyatripathi over 4 years ago

#115 - Barplots

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

#114 - BUG: Fix problem with error message

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

#113 - Remove the usage of np.nan for missing values

Issue - State: closed - Opened by ElDeveloper almost 5 years ago

#112 - Feature data

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

#111 - add barplot support to qemistree plot module

Issue - State: closed - Opened by anupriyatripathi almost 5 years ago

#110 - disambiguate header names in feature data

Issue - State: closed - Opened by anupriyatripathi almost 5 years ago

#109 - disable repeated color warning when color file path is not specified

Issue - State: closed - Opened by anupriyatripathi almost 5 years ago - 1 comment

#108 - Removes _itol_metadata.py in favor of a QIIME2 visualization

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

#107 - Prune render

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

#106 - allow prune hierarchy to prune by any other field or a list of feature names

Issue - State: closed - Opened by anupriyatripathi almost 5 years ago
Labels: enhancement

#105 - give an option to label and color by different fields in itol metadata

Issue - State: closed - Opened by anupriyatripathi almost 5 years ago
Labels: enhancement

#104 - ENH: Add standard error to command calls

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

#103 - convert itol functionality into qiime2 command

Pull Request - State: closed - Opened by qiyunzhu almost 5 years ago - 3 comments

#102 - Adding a "enhance with Qemistree" to FBMN workflow

Issue - State: closed - Opened by DeepaAcharya almost 5 years ago - 1 comment

#101 - Updated the README file to include _itol_metadata.py changes

Pull Request - State: closed - Opened by stephramos17 almost 5 years ago

#100 - convert _itol_metadata.py script to a qemistree module

Issue - State: closed - Opened by anupriyatripathi almost 5 years ago - 1 comment

#99 - Tree fixes (Critical)

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

#98 - Versioneering

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

#98 - Versioneering

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

#97 - check both `Smiles` and `Compound_Name` for ms2 match

Issue - State: closed - Opened by anupriyatripathi almost 5 years ago
Labels: good first issue

#96 - Itol render

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

#95 - prune hierarchy based on feature abundance and/or prevalence

Issue - State: open - Opened by anupriyatripathi almost 5 years ago
Labels: enhancement, help wanted

#94 - add RT and m/z in feature data output

Issue - State: closed - Opened by anupriyatripathi almost 5 years ago - 1 comment
Labels: enhancement

#93 - update README

Issue - State: closed - Opened by anupriyatripathi almost 5 years ago - 1 comment
Labels: good first issue

#92 - Classyfire updates

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

#91 - added iToL bar chart function

Pull Request - State: closed - Opened by qiyunzhu almost 5 years ago - 3 comments

#90 - add module to append new feature metadata to FeatureData[Molecules]

Issue - State: closed - Opened by anupriyatripathi almost 5 years ago
Labels: wontfix

#88 - Add a transformer from TSVMolecules to QIIME2 Metadata

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

#87 - Fbmn fix

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

#86 - Map feature abundances per metadata column on tree

Issue - State: closed - Opened by anupriyatripathi almost 5 years ago - 1 comment

#85 - Make structure pop-ups in iTOL rendering

Issue - State: open - Opened by anupriyatripathi almost 5 years ago
Labels: enhancement

#84 - Prune fix

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

#83 - Ability to collate MS2 spectral matches from GNPS

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

#82 - Readme

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

#81 - Classyfire - WIP

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

#80 - Hierarchy 2019.7

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

#79 - Change hyphen to underscore in setup.py

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

#78 - data folder is not including when doing pip install

Issue - State: closed - Opened by mwang87 about 5 years ago - 1 comment

#77 - Adding manifest file

Pull Request - State: closed - Opened by mwang87 about 5 years ago - 1 comment

#76 - Qc fps

Pull Request - State: closed - Opened by anupriyatripathi over 5 years ago - 3 comments

#75 - Parentmz WIP

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

#74 - Biom match

Pull Request - State: closed - Opened by tgroth97 over 5 years ago
Labels: wontfix

#73 - make zodiac step optional

Issue - State: closed - Opened by anupriyatripathi over 5 years ago
Labels: enhancement

#72 - deleting old test data

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

#71 - BLD: Fix Travis build to let the tests run

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

#70 - deleting old testdata

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

#69 - Compress files in test-data

Issue - State: closed - Opened by ElDeveloper over 5 years ago
Labels: good first issue

#68 - Reponame

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

#67 - Update project name

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

#65 - Network integration and Summary of Fingerprints

Pull Request - State: closed - Opened by mwang87 over 5 years ago - 1 comment

#64 - Expose max mz

Issue - State: closed - Opened by mwang87 over 5 years ago

#63 - Expose parallelism

Issue - State: closed - Opened by mwang87 over 5 years ago

#62 - output fingerprint based substructures

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

#61 - tree visualization

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

#60 - Save out per feature fingerprints as a new plugin operation

Issue - State: closed - Opened by mwang87 over 5 years ago