Ecosyste.ms: Issues

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GitHub / zqfang/GSEApy issues and pull requests

#141 - corrected calculation of t_test

Pull Request - State: closed - Opened by pirakd over 2 years ago - 1 comment

#140 - Confusion regarding phenotype permutation

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

#139 - Permission error connecting to Enrichr

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

#138 - fixed biomart typo

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

#134 - Prerank step takes an incredible volume of memory

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

#133 - NES values - error in calculations ?

Issue - State: closed - Opened by Floreuzan over 2 years ago - 1 comment
Labels: discussion

#131 - cannot import name 'gseaplot' from 'gseapy.plot'

Issue - State: closed - Opened by yhan8 almost 3 years ago - 1 comment

#130 - Update enrichr.py

Pull Request - State: closed - Opened by engelsdaniel almost 3 years ago - 1 comment

#129 - Improve offline enrichr mode

Pull Request - State: closed - Opened by engelsdaniel almost 3 years ago - 1 comment

#126 - Update introduction.rst

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

#125 - GSEA ES and NES values are nan

Issue - State: closed - Opened by rraadd88 about 3 years ago - 10 comments

#124 - Potential issue of floating point precision in prerank

Issue - State: closed - Opened by hsiaoyi0504 about 3 years ago - 4 comments

#123 - update human background gene

Pull Request - State: closed - Opened by hsiaoyi0504 about 3 years ago - 3 comments

#121 - Background gene is not saved in self._bg correctly and seems not be used

Issue - State: closed - Opened by hsiaoyi0504 about 3 years ago - 4 comments

#120 - Prerank input question

Issue - State: closed - Opened by hsiaoyi0504 about 3 years ago - 3 comments

#119 - I can't make dotplot graphs when I analyze more than one set

Issue - State: closed - Opened by arturomarin about 3 years ago - 2 comments

#118 - KeyError with plot.dotplot

Issue - State: closed - Opened by evcon131 about 3 years ago - 3 comments

#117 - GSEApy Exception: Error analyzing gene list

Issue - State: closed - Opened by Wendy-k2 over 3 years ago - 7 comments

#116 - GSEApy "KeyError: 'Adjusted P-value'"

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

#112 - Fix Enrichr API

Pull Request - State: closed - Opened by fvalle1 over 3 years ago - 1 comment

#111 - Enrichr API key error

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

#110 - URL for enrichr libraries moved

Issue - State: closed - Opened by pcahan1 over 3 years ago - 12 comments

#109 - local mode, passing a dict as gene set, return no hit

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

#108 - ssgsea function cause "Invalid IHDR data" error

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

#107 - enrichr doesn't show all the gene sets

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

#106 - KeyError: 'Adjusted P-value' when running enrichr

Issue - State: closed - Opened by erwinerdem almost 4 years ago - 6 comments

#104 - error condition causes juypter notebook to hang

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

#103 - what is the difference between prerank and single sample

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

#102 - Ranking by absolute value of signal to noise

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

#101 - ssGSEA leading edge

Issue - State: closed - Opened by EmanuelGoncalves about 4 years ago - 2 comments

#100 - Maybe a bug: samples in the heatmap were less than expected

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

#99 - Suggestion of new features

Issue - State: open - Opened by loganylchen about 4 years ago - 1 comment
Labels: enhancement, New Feature

#98 - Inconsistent get_library_name and gp.enrichr for Yeast database

Issue - State: closed - Opened by anfoss about 4 years ago - 2 comments

#97 - Repeat the whole python file the same times as many processes I set

Issue - State: closed - Opened by liugaocn about 4 years ago - 2 comments

#96 - Help using GSEApy for things other than genes

Issue - State: closed - Opened by benbowen about 4 years ago - 2 comments

#95 - Inconsistent results

Issue - State: closed - Opened by boiarsky18 about 4 years ago - 1 comment

#93 - Citing your software

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

#92 - Parallelism fix to reduce errors on large datasets like scRNAseq

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

#89 - several question in using GSEApy

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

#80 - Prerank empties out the dictionary

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

#76 - ssgsea fails with pandas multiindex

Issue - State: closed - Opened by ac3957 about 5 years ago - 2 comments

#72 - enrichment test for two ranked gene lists

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

#70 - the value of nes，pvalue and fdr can‘t achieve reproducibility

Issue - State: closed - Opened by huchua about 5 years ago - 2 comments

#68 - conda dockerfile

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

#55 - gseapy.prerank - errors for small ranked lists

Issue - State: closed - Opened by michaelpierrelee over 5 years ago - 8 comments
Labels: discussion

#51 - odd memory behavior use multiple processes

Issue - State: closed - Opened by ghost almost 6 years ago - 2 comments
Labels: help wanted

#47 - expected enrichment score of -0.5, got -0.496 instead

Issue - State: closed - Opened by ghost almost 6 years ago - 6 comments

#46 - y-axis in enrichment score plot is all zeros

Issue - State: closed - Opened by ghost almost 6 years ago - 1 comment

#38 - A small question about the original GSEA implementation

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

#19 - ValueError: Length of values does not match length of index

Issue - State: closed - Opened by segelmichael over 7 years ago - 6 comments
Labels: question