Ecosyste.ms: Issues

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GitHub / PayneLab/cptac issues and pull requests

#69 - tutorial 6 and 7 link broken

Issue - State: open - Opened by dingying85 about 2 months ago

#68 - Module 'cptac' has no attribute 'INDEX'

Issue - State: open - Opened by mavershang 4 months ago - 3 comments

#67 - Zenodo request fails for BRCA clinical data

Issue - State: closed - Opened by sooheon 5 months ago - 1 comment

#66 - Unable to import cptac version 1.5.14

Issue - State: closed - Opened by Sunmile 6 months ago - 1 comment

#65 - cptac package failing on import

Issue - State: open - Opened by sgosline 7 months ago

#64 - 429 Client Error: TOO MANY REQUESTS Error

Issue - State: open - Opened by CCranney 7 months ago - 2 comments

#62 - v1.5.11 not available on pip

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

#61 - cptac 1.5.10 pandas

Issue - State: closed - Opened by cchen22 10 months ago - 2 comments

#60 - `cptac` package failing on Import

Issue - State: closed - Opened by sgosline 10 months ago - 3 comments

#59 - version question

Issue - State: closed - Opened by Cp0728 10 months ago - 2 comments

#58 - Proteomics dataframes between "umich" and "bcm"

Issue - State: open - Opened by sunhuaiyu 11 months ago

#57 - Fail to download the ucec proteomics data from bcm

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

#56 - FFPE vs Frozen tissue filter

Issue - State: closed - Opened by sebastianffx 12 months ago - 1 comment

#55 - Tissue source center

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

#54 - R integration TypeError: object of type 'generator' has no len()

Issue - State: closed - Opened by Liz-m57 about 1 year ago - 1 comment

#53 - How to best use the protein expression data

Issue - State: open - Opened by seunghun23 about 1 year ago

#52 - Clinical data download fail

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

#51 - KeyError: 'filesize' on cptac import

Issue - State: closed - Opened by Liz-m57 about 1 year ago - 3 comments

#50 - KeyError: 'filename' on cptac import

Issue - State: closed - Opened by DennisGankin about 1 year ago - 2 comments

#49 - inconsistent data with PDC

Issue - State: closed - Opened by sky1ove about 1 year ago - 1 comment

#48 - Tutorial 6: Easy integration with R link broken

Issue - State: closed - Opened by crazyhottommy about 1 year ago - 3 comments

#47 - HttpResponseError on import

Issue - State: closed - Opened by DennisGankin about 1 year ago - 5 comments

#45 - Error in cancer.py file

Issue - State: closed - Opened by janamace about 1 year ago - 4 comments

#42 - Units of protein and RNA expression data

Issue - State: closed - Opened by seunghun23 about 1 year ago - 2 comments

#41 - download does not work

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

#40 - `get_clinical()` function now generates an erro

Issue - State: closed - Opened by sgosline about 1 year ago - 2 comments

#39 - make CPTAC_BASE_DIR configurable

Issue - State: closed - Opened by sgosline about 1 year ago - 6 comments

#38 - tutorial is not compatible with current release

Issue - State: closed - Opened by sky1ove about 1 year ago - 2 comments

#37 - Inquiry about pancancer data

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

#36 - how to download the transcript-level not the gene-level data from CPTAC?

Issue - State: closed - Opened by zihaoxingstudy1 about 1 year ago - 1 comment

#35 - With new framework, can't find all files

Issue - State: closed - Opened by sgosline over 1 year ago - 5 comments

#33 - Bump scipy from 1.7.3 to 1.10.0

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 1 comment
Labels: dependencies

#32 - pancan.download() not working, insufficient internet

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

#31 - Glycoproteomics

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

#30 - Why is Pancreas proteomics data not centered at 0?

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

#29 - the problem of colon cancer survival analysis

Issue - State: closed - Opened by zihaoxingstudy1 over 2 years ago - 1 comment

#28 - the threshold about wgs_somatic_cnv_per_gene data

Issue - State: closed - Opened by zihaoxingstudy1 over 2 years ago - 1 comment

#25 - Request for LSCC data

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

#24 - Document published CPTAC studies and those implemented in package

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

#23 - update the usage of utils.reactome_pathway_overlay in use case

Pull Request - State: closed - Opened by hsiaoyi0504 over 3 years ago - 1 comment

#22 - ValueError: cannot find context for 'fork'

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

#21 - cptac.utils.get_frequently_mutated() ValueError

Issue - State: closed - Opened by nanel96 over 3 years ago - 4 comments

#20 - Problem getting data from Hnscc dataset

Issue - State: closed - Opened by smdb21 almost 4 years ago - 8 comments

#19 - Problem with xlrd >= 2.0.0

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

#18 - how do you process the CPTAC spectral counts data?

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

#17 - Some of the proteomics data are not in the same format

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

#16 - List available versions of datasets

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

#15 - Data questions

Issue - State: closed - Opened by SAlkh90-temp over 4 years ago - 1 comment

#14 - ccrcc proteomics data

Issue - State: closed - Opened by SAlkh90-temp over 4 years ago - 2 comments

#13 - get new updates

Pull Request - State: closed - Opened by awilliamson518 over 4 years ago

#12 - About transcriptomics normalization

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

#11 - why there are negative value in the CPTAC proteomics expression level?

Issue - State: closed - Opened by zihaoxingstudy1 over 4 years ago - 1 comment

#9 - why the CPTAC patients' id is different from TCGA's patient id?

Issue - State: closed - Opened by zihaoxingstudy1 over 4 years ago - 2 comments

#8 - why don't you analyze some gastric cancer in CPTAC ?

Issue - State: closed - Opened by zihaoxingstudy1 over 4 years ago - 4 comments

#7 - no attribute error

Issue - State: closed - Opened by a00101 over 4 years ago - 19 comments

#6 - Update all tutorials and use cases

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

#5 - xlrd dependency missing

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

#4 - NoInternetError: Insufficient internet. Check your internet connection.

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

#3 - ModuleNotFoundError: No module named 'packaging'

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

#2 - Sean1

Pull Request - State: closed - Opened by seanjib almost 6 years ago

#1 - Sean1

Pull Request - State: closed - Opened by seanjib almost 6 years ago