Ecosyste.ms: Issues

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

GitHub / biocore/mmvec issues and pull requests

#180 - What's the threshod of p*n in the microbe and metabolite datasets?

Issue - State: closed - Opened by 12Hanyue 29 days ago - 4 comments

#179 - ValueError: 'a' cannot be empty unless no samples are taken

Issue - State: open - Opened by Chauncy-Fang about 1 month ago - 3 comments

#177 - Tensorflow-gpu is not found upon installation

Issue - State: open - Opened by KDSpencer77 10 months ago - 1 comment

#176 - Version compatibility issues

Issue - State: closed - Opened by MOUTAI-Lee 10 months ago - 2 comments

#175 - Compatibility issues on macbook pro with M1 chip

Issue - State: open - Opened by mdoolin2014 about 1 year ago - 4 comments

#174 - docs: specify abundance vs frequency

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

#173 - Different results

Issue - State: closed - Opened by xmcr almost 2 years ago - 4 comments

#172 - error: no such option: --o-model-stats

Issue - State: closed - Opened by xmcr almost 2 years ago - 10 comments

#171 - An qiime2 error has occurred

Issue - State: closed - Opened by xmcr almost 2 years ago - 5 comments

#169 - tensorflow.contrib

Issue - State: closed - Opened by Ma-tengyu over 2 years ago - 1 comment
Labels: wontfix

#168 - Pytorch refactor

Pull Request - State: open - Opened by ebolyen over 2 years ago - 2 comments

#167 - DRAFT: first draft of model

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

#166 - MMvec refactor

Issue - State: open - Opened by mortonjt over 2 years ago - 6 comments

#165 - Tips and Tricks to speed up training

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

#164 - Why 13 metabolites as ground truth in soil dataset?

Issue - State: closed - Opened by wanglu2014 almost 3 years ago - 2 comments

#163 - Could mmvec measure the consumption of metabolites?

Issue - State: closed - Opened by wanglu2014 almost 3 years ago - 1 comment

#162 - what is the role of example?

Issue - State: closed - Opened by kechen1984 almost 3 years ago - 4 comments

#161 - help with heatmap conditionals to create ranks.qza file

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

#160 - Minor fixes

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

#159 - Plugin error from mmvec

Issue - State: closed - Opened by CarlaCristinaUranga over 3 years ago - 14 comments

#158 - ranks with full taxonomic hierarqui rather than featureid

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

#157 - Error: QIIME 2 has no plugin/command named 'mmvec'.

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

#156 - heatmap change "--p-x-labels " size

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

#155 - paired_omics error - 'arm_the_gpu'

Issue - State: closed - Opened by lindsval over 3 years ago - 5 comments

#154 - ranks.qza file for heatmap

Issue - State: closed - Opened by MilouArts almost 4 years ago - 7 comments

#153 - Error from biom table in wrong orientation and some manual suggestions

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

#152 - Docs

Pull Request - State: closed - Opened by mortonjt almost 4 years ago

#151 - Convergence stats

Pull Request - State: closed - Opened by mortonjt almost 4 years ago - 1 comment

#150 - Trouble running mmvec/Tensorflow

Issue - State: closed - Opened by CarlaCristinaUranga almost 4 years ago - 10 comments

#149 - Nan in summary histogram for: qUbias_1 (was also qUmain or qVmain)

Issue - State: closed - Opened by tgroth97 almost 4 years ago - 7 comments

#148 - Tensorflow numpy incompatible with Qiime 2020.8 (current version)

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

#147 - Normality test for relative abundance data

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

#146 - heatmap in svg format

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

#145 - Upgrade pandas

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

#144 - Tensorboard only shows a single point

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

#143 - heatmap missing some in row and column

Issue - State: closed - Opened by LiZhihua1982 about 4 years ago - 1 comment

#142 - Error running with my data (a' cannot be empty)

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

#141 - heatmap-paired unable to find some features

Issue - State: closed - Opened by mestaki about 4 years ago - 5 comments

#140 - Update README.md

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

#139 - Ensuring q2-plug-in ran correctly

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

#138 - FIX: enabling batch size to be explicitly specified

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

#137 - doubt in generating a heatmap

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

#136 - mmvec metagenomic full abundance table or sub-selected table

Issue - State: open - Opened by luzhang321 over 4 years ago - 1 comment

#135 - mmvec with shotgun metagenome+metabolome

Issue - State: closed - Opened by khemlalnirmalkar over 4 years ago - 43 comments

#134 - Exact parameters used in paper

Issue - State: closed - Opened by isisannelie over 4 years ago - 2 comments

#133 - Error in the paired-heatmap

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

#132 - Suggestion for FAQ

Issue - State: closed - Opened by KujawinskiLaboratory over 4 years ago - 7 comments

#131 - Equalize vectors

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

#130 - This restricts pandas to 0.25.3 or older

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

#129 - Throw error when iterations is too small

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

#128 - Input data format

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

#127 - download example metadata

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

#126 - convert CF simulation data to biom

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

#125 - Error in running the example

Issue - State: closed - Opened by nzarnaghi over 4 years ago - 7 comments

#124 - How can I get the exact feature id and otu id in heatmap, correspondingly.

Issue - State: closed - Opened by ChangkunLi2019 over 4 years ago - 4 comments

#123 - Running an example

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

#122 - mmvec installation

Issue - State: closed - Opened by nzarnaghi over 4 years ago - 3 comments

#121 - BUG: paired-heatmap keep_top_samples option is broken

Issue - State: open - Opened by nbokulich over 4 years ago

#120 - interpration of the outputs

Issue - State: closed - Opened by maque4004 over 4 years ago - 6 comments

#119 - Describe inputs in README

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

#118 - Describe input files

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

#117 - Equalize singular vectors option in q2cli

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

#115 - Equalize singular vectors of conditional probabilities

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

#114 - Reproducing the example data (cystic fibrosis)

Issue - State: closed - Opened by mstrazar almost 5 years ago - 11 comments

#113 - Update min-feature-count argument

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

#112 - BLD: pinning tensorflow version

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

#111 - Simplify delivery and interfacing

Issue - State: open - Opened by mstrazar almost 5 years ago - 5 comments
Labels: bug

#110 - Readme update

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

#109 - Raise error when passing in wrong files

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

#107 - Update to qiime 2019.10

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

#106 - fixing typo in readme

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

#105 - Dependency cap on TF

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

#104 - Correcting typo

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

#103 - Error when running q2-mmvec paired-omics: 'rU' referenced before assignment

Issue - State: closed - Opened by ADGM almost 5 years ago - 20 comments

#102 - numpy 1.17 gives error/warning

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

#101 - Adding --p-logging-dir option

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

#100 - TST: fixing orientation of ranks in heatmaps

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

#99 - FIX: transposing ranks for final output.

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

#98 - Tutorial for viewing the ranks

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

#97 - Unable to install both in Qiime2 environments and as standalone

Issue - State: closed - Opened by afvrbanac almost 5 years ago - 16 comments

#96 - Need warning for cross validation

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

#95 - Make filtering consistent between tables

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

#94 - Enable simple hypothesis tests

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

#93 - Enabling the download of raw conditional probabilities

Issue - State: closed - Opened by mortonjt almost 5 years ago - 2 comments

#92 - FIX: Fixing the ordering of the eigenvalues.

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

#91 - Fix missing asset (index.html)

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

#90 - missing index.html

Issue - State: closed - Opened by cameronmartino about 5 years ago - 4 comments

#89 - Heatmap tutorial

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

#88 - removed conda installation instructions

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

#87 - Clean up branches

Issue - State: open - Opened by mortonjt about 5 years ago

#86 - Proportion explained is out of order: axis 1 < axis 2 < axis 3

Issue - State: closed - Opened by wasade about 5 years ago - 3 comments

#85 - Obvious instability warnings

Issue - State: closed - Opened by wasade about 5 years ago - 4 comments

#83 - Update qiime2/GNPS tutorials

Issue - State: open - Opened by mortonjt about 5 years ago

#81 - Version 1 action items

Issue - State: open - Opened by mortonjt about 5 years ago

#79 - Error running on GPU: device renaming issue?

Issue - State: open - Opened by FranckLejzerowicz about 5 years ago - 2 comments

#75 - paired heatmaps

Pull Request - State: closed - Opened by nbokulich about 5 years ago - 20 comments