Ecosyste.ms: Issues

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

GitHub / biocore/qadabra issues and pull requests

#65 - get_pvalue_tool_columns using p-value columns instead of corrected P-value columns

Pull Request - State: closed - Opened by yangchen2 9 months ago - 1 comment

#63 - Issue using corncob and metagenomeseq

Issue - State: open - Opened by bdpessem 9 months ago - 7 comments

#62 - Update to v0.3.0

Pull Request - State: closed - Opened by gibsramen 10 months ago

#61 - Pin dependences for default env

Pull Request - State: closed - Opened by gibsramen 10 months ago

#60 - Update badge to point to biocore

Pull Request - State: closed - Opened by gibsramen 10 months ago

#58 - Error regarding MaAsLin2 log ratios

Issue - State: closed - Opened by 411an13 10 months ago - 1 comment

#57 - Issue adding the tutorial dataset

Issue - State: closed - Opened by 411an13 11 months ago - 2 comments

#52 - error when installing scikit-bio

Issue - State: open - Opened by ahdilmore about 1 year ago - 1 comment

#52 - error when installing scikit-bio

Issue - State: open - Opened by ahdilmore about 1 year ago - 1 comment

#51 - Confounders not accepted as string

Issue - State: closed - Opened by ahdilmore about 1 year ago

#50 - Metadata with all numerical SampleIDs not accepted

Issue - State: closed - Opened by ahdilmore about 1 year ago

#49 - PR to address issues #48, #50, and #51

Pull Request - State: closed - Opened by yangchen2 about 1 year ago

#49 - PR to address issues #48, #50, and #51

Pull Request - State: closed - Opened by yangchen2 about 1 year ago

#48 - Wrong LICENSE referenced in README

Issue - State: closed - Opened by gibsramen about 1 year ago - 1 comment

#47 - fixes from tutorial trial run

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

#47 - fixes from tutorial trial run

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

#44 - read in phylogenetic tree and check tip names

Pull Request - State: closed - Opened by yangchen2 over 1 year ago

#44 - read in phylogenetic tree and check tip names

Pull Request - State: closed - Opened by yangchen2 over 1 year ago

#43 - Interactive rank plots and p-value comparison plots

Pull Request - State: closed - Opened by yangchen2 over 1 year ago - 1 comment

#43 - Interactive rank plots and p-value comparison plots

Pull Request - State: closed - Opened by yangchen2 over 1 year ago - 1 comment

#42 - Merge pull request #2 from gibsramen/main

Pull Request - State: closed - Opened by yangchen2 over 1 year ago

#41 - Better color palette for correlations

Issue - State: open - Opened by gibsramen over 1 year ago - 1 comment

#41 - Better color palette for correlations

Issue - State: open - Opened by gibsramen over 1 year ago - 1 comment

#40 - Use new bash script support for Songbird

Issue - State: open - Opened by gibsramen over 1 year ago

#39 - update plot_pca.py to items(), iteritems deprecated() in pandas v1.5.0

Pull Request - State: closed - Opened by yangchen2 over 1 year ago

#38 - maaslin2 error for covariate with > 2 levels

Pull Request - State: closed - Opened by yangchen2 over 1 year ago

#38 - maaslin2 error for covariate with > 2 levels

Pull Request - State: closed - Opened by yangchen2 over 1 year ago

#37 - maaslin2 error for covariate with > 2 levels

Issue - State: closed - Opened by yangchen2 over 1 year ago - 1 comment

#37 - maaslin2 error for covariate with > 2 levels

Issue - State: closed - Opened by yangchen2 over 1 year ago - 1 comment

#35 - differentials_table.html opens blank HTML

Issue - State: closed - Opened by yangchen2 over 1 year ago

#35 - differentials_table.html opens blank HTML

Issue - State: closed - Opened by yangchen2 over 1 year ago

#34 - Bokeh 'names' attribute deprecated, replaced under 'tooltips'

Pull Request - State: closed - Opened by yangchen2 over 1 year ago

#34 - Bokeh 'names' attribute deprecated, replaced under 'tooltips'

Pull Request - State: closed - Opened by yangchen2 over 1 year ago

#33 - bokeh attribute error

Pull Request - State: closed - Opened by yangchen2 over 1 year ago

#33 - bokeh attribute error

Pull Request - State: closed - Opened by yangchen2 over 1 year ago

#32 - Pin MPL & Pandas dependencies

Pull Request - State: closed - Opened by gibsramen about 2 years ago - 1 comment

#31 - Target and Reference Level Issue

Issue - State: open - Opened by SAlkh90-temp about 2 years ago

#30 - Refactor to v0.3.0a1

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

#29 - Refactor for multiple dataset support

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

#28 - Add Kendall tau as rank correlation metric

Issue - State: open - Opened by gibsramen over 2 years ago

#27 - Fix typo in PCA

Issue - State: closed - Opened by gibsramen over 2 years ago

#26 - Fix bug with R renaming features if they start with a numeral

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

#25 - Rework repeated K-fold CV

Issue - State: open - Opened by gibsramen over 2 years ago - 1 comment

#24 - Reading biom files in R causes an X to be added to column names that start with #

Issue - State: closed - Opened by nearinj over 2 years ago - 1 comment

#23 - Update Songbird rule output

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

#22 - Update Songbird output

Issue - State: closed - Opened by gibsramen over 2 years ago

#21 - Update to v0.2.0

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

#20 - Add EMPress plot

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

#20 - Add EMPress plot

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

#19 - Update logging + PR curves

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

#18 - Add PRC

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

#18 - Add PRC

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

#17 - Update logging for R scripts

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

#17 - Update logging for R scripts

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

#16 - Update rules

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

#16 - Update rules

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

#15 - Add corncob & update DAG

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

#14 - Update get_pctile_feats rule to only use specific tool output

Issue - State: closed - Opened by gibsramen over 2 years ago

#13 - Add metagenomeSeq

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

#12 - Use consistent colors for tools in visualizations

Issue - State: closed - Opened by gibsramen over 2 years ago

#11 - Add better logging

Issue - State: closed - Opened by gibsramen over 2 years ago - 1 comment

#11 - Add better logging

Issue - State: closed - Opened by gibsramen over 2 years ago - 1 comment

#10 - Add MaAsLin2

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

#9 - Add support for additional confounders

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

#9 - Add support for additional confounders

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

#8 - Add PR curve in addition to ROC

Issue - State: closed - Opened by gibsramen over 2 years ago

#8 - Add PR curve in addition to ROC

Issue - State: closed - Opened by gibsramen over 2 years ago

#7 - Add PCA regression

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

#7 - Add PCA regression

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

#5 - Modularize interactive webapp

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

#4 - Move PCA from interactive app to own rules

Issue - State: closed - Opened by gibsramen over 2 years ago

#4 - Move PCA from interactive app to own rules

Issue - State: closed - Opened by gibsramen over 2 years ago

#3 - Add optional phylogenetic tree input + EMPress

Issue - State: closed - Opened by gibsramen over 2 years ago

#3 - Add optional phylogenetic tree input + EMPress

Issue - State: closed - Opened by gibsramen over 2 years ago

#2 - Add GH actions

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