Ecosyste.ms: Issues

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

GitHub / GoekeLab/xpore issues and pull requests

#232 - dataprep result is empty

Issue - State: open - Opened by Seongmin-Jang-1165 4 days ago

#231 - Repackage xpore & add Yuk Kei's CI

Pull Request - State: closed - Opened by lrauschning 19 days ago - 3 comments

#230 - Run wiith only one sample

Issue - State: open - Opened by Seongmin-Jang-1165 about 1 month ago - 1 comment

#229 - Inquiry about the result interpretation and m6A level

Issue - State: closed - Opened by kwonej0617 about 1 month ago - 1 comment

#228 - Nanopolish "eventalign" command not completing in time limit.

Issue - State: open - Opened by baibhav-bioinfo about 2 months ago - 1 comment

#227 - error in xpore diffmod step

Issue - State: closed - Opened by mariachiaragrieco 2 months ago

#226 - Question about datarep

Issue - State: open - Opened by cent0134 2 months ago - 2 comments

#225 - RNA004 Inverted DRACH Results

Issue - State: open - Opened by BrendanBeahan 4 months ago - 2 comments

#223 - question about the modification category

Issue - State: open - Opened by huawen-poppy 4 months ago - 2 comments

#222 - DataPrep error and empty output files

Issue - State: open - Opened by cent0134 4 months ago - 2 comments

#221 - enquire about interpretation of diff_mod rate column

Issue - State: open - Opened by g-s-2018 5 months ago - 2 comments

#220 - Question about xpore and Motif Output

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

#219 - error in xpore diffmod

Issue - State: open - Opened by lyj95618 6 months ago - 2 comments

#218 - version number needs to be updated

Issue - State: open - Opened by nickst85 6 months ago - 1 comment

#217 - KeyError: exon in xpore dataprep

Issue - State: open - Opened by mumdark 7 months ago - 4 comments

#216 - diffmod error

Issue - State: closed - Opened by rugilemat 8 months ago - 4 comments

#215 - Eventalign.index from m6anet output and RNA004 compatibility

Issue - State: open - Opened by rugilemat 8 months ago - 9 comments

#214 - empty output files in dataprep stage

Issue - State: open - Opened by villegmb 8 months ago - 6 comments

#213 - Biological replicate

Issue - State: closed - Opened by AndreaYCT 9 months ago - 4 comments

#212 - xpore dataprep empty output files

Issue - State: closed - Opened by linyan168168 9 months ago - 9 comments

#211 - dataprep empty output files

Issue - State: closed - Opened by linyan168168 9 months ago - 1 comment

#208 - Performance Warning

Issue - State: closed - Opened by nickst85 11 months ago - 1 comment

#207 - question about interpreting the NA value in the mod rate column

Issue - State: open - Opened by lyj95618 12 months ago - 3 comments

#205 - update version to 2.1.1

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

#204 - add ci

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

#203 - version 2.1.1 -- add ci and cDNA fasta bug fix

Pull Request - State: open - Opened by yuukiiwa about 1 year ago

#202 - add ci

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

#201 - fixing bug for Ensembl cDNA fasta

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

#200 - Revert "fixing bug for Ensembl cDNA fasta"

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

#199 - Revert "Create CODE_OF_CONDUCT.md"

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

#198 - Revert "Update __init.py__ to match 2.1"

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

#197 - Revert "Create CONTRIBUTING.md"

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

#196 - add ci

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

#195 - add ci

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

#194 - Revert "test add ci"

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

#193 - test add ci

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

#192 - Create CONTRIBUTING.md

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

#191 - Create CODE_OF_CONDUCT.md

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

#190 - fixing bug for Ensembl cDNA fasta

Pull Request - State: closed - Opened by loganylchen about 1 year ago - 3 comments

#189 - Can Xpore detect 5mC RNA modification

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

#188 - concern about the error in the dataprep step

Issue - State: closed - Opened by lyj95618 about 1 year ago - 1 comment

#186 - Concern about the P value!

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

#185 - question about replicates

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

#184 - error in datapre step

Issue - State: closed - Opened by huawen-poppy about 1 year ago - 7 comments

#182 - Three questions about xpore

Issue - State: open - Opened by iamwjy1 over 1 year ago

#181 - Can Xpore detect RNA modification other than m6A?

Issue - State: open - Opened by fulaibaowang over 1 year ago - 3 comments

#180 - diffmod.table missing majority of positions

Issue - State: open - Opened by JannesSP over 1 year ago - 5 comments

#178 - The scope of application of the xpore

Issue - State: closed - Opened by zzf77 over 1 year ago - 1 comment

#172 - diffmod.table and eventalign.index contain only header

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

#170 - dataprep error and empty output files

Issue - State: closed - Opened by Michael-m6A almost 2 years ago - 27 comments

#169 - diffmod output files empty

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

#168 - output of diffmod and xpore post processing

Issue - State: closed - Opened by rezarahman12 almost 2 years ago - 4 comments

#167 - about Homo_sapiens.GRCh38.cdna.ncrna_wtChrIs_modified

Issue - State: closed - Opened by rezarahman12 about 2 years ago

#166 - Diffmod and yml file outcome issue

Issue - State: closed - Opened by Michael-m6A about 2 years ago - 3 comments

#165 - Request for xpore result of HEK293T-rep1

Issue - State: open - Opened by rezarahman12 about 2 years ago - 2 comments

#162 - dataprep high coverage sample

Issue - State: closed - Opened by rania-o about 2 years ago - 6 comments

#161 - diffmod running problem

Issue - State: closed - Opened by rezarahman12 about 2 years ago - 2 comments

#160 - Request for xpore result of HEK293T-rep2

Issue - State: closed - Opened by kwonej0617 about 2 years ago - 20 comments

#159 - eventalignment and bas fast5 file

Issue - State: closed - Opened by rezarahman12 about 2 years ago - 3 comments

#158 - HEK293T data fast5 untar problem

Issue - State: closed - Opened by rezarahman12 about 2 years ago - 1 comment

#157 - Diffmode demo problems

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

#155 - difference of eventalign files

Issue - State: closed - Opened by rezarahman12 about 2 years ago - 2 comments

#154 - dRNA-Seq kit and FLO cell ID

Issue - State: closed - Opened by rezarahman12 about 2 years ago - 2 comments

#153 - output table description

Issue - State: closed - Opened by zzf77 about 2 years ago - 3 comments

#152 - dataprep control error

Issue - State: closed - Opened by rania-o over 2 years ago

#151 - Interpretation of results

Issue - State: open - Opened by zzf77 over 2 years ago - 5 comments

#150 - reference files inquiry

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

#149 - eventalign.txt file size

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

#148 - eventalign.txt.gz file as an input

Issue - State: open - Opened by sunsetyerin over 2 years ago - 1 comment
Labels: enhancement

#147 - run without KO sample

Issue - State: open - Opened by xieyy46 over 2 years ago - 1 comment

#146 - results of every transcriptomic position

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

#144 - Position to coordinate

Issue - State: closed - Opened by ynren1020 over 2 years ago - 10 comments

#143 - Regulate minimum coverage manually ？

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

#142 - Diffmod_error

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

#141 - data problems data.json

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

#140 - Dataprep error

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

#139 - Unable to create group

Issue - State: closed - Opened by ynren1020 over 2 years ago - 1 comment

#138 - Dataprep issue: empty data files

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

#137 - dataprep ERROR

Issue - State: closed - Opened by zzf77 over 2 years ago - 1 comment

#134 - Clarification on "Output table description"

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

#133 - How to get absolute m6A number in each library?

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

#128 - Issue regarding the HEK293T data and preprocessed HEK293T data

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

#125 - How can I get p values for all the positions?

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

#124 - Version number is wrong in bioconda 2.1 install

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

#123 - Issue running dataprep

Issue - State: closed - Opened by acarmas1 almost 3 years ago - 15 comments

#122 - KeyError: 'contig' when running xpore-dataprep

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

#119 - --n_processes errors xpore diffmod

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

#118 - Can xpore be used for analysis Promethion direct rna sequence data?

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

#115 - Update __init.py__ to match 2.1

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

#114 - Are the initial data-prep steps now in line with m6anet?

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