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GitHub / bactopia/bactopia issues and pull requests

#336 - [bug] output in json format only

Issue - State: closed - Opened by shlomobl over 2 years ago - 2 comments
Labels: bug

#335 - Having trouble loading in my R1 and R2 reads for genome assembly [question]

Issue - State: closed - Opened by discipleofdarwin over 2 years ago - 23 comments
Labels: question

#334 - macOS: Bactopia refused to continue after S. aureus dataset was created

Issue - State: open - Opened by phanhung2 over 2 years ago - 13 comments
Labels: bug

#333 - update metadata for docs

Pull Request - State: closed - Opened by rpetit3 over 2 years ago

#330 - [feature] Adding module for identifying the prophages in the genome?

Issue - State: open - Opened by Tonny-zhou over 2 years ago - 5 comments
Labels: enhancement

#327 - [bug] can't run pipeline

Issue - State: closed - Opened by samlipworth over 2 years ago - 4 comments
Labels: bug

#326 - Bug in bactopia datasets update --species "Escherichia"

Issue - State: closed - Opened by plasminogene over 2 years ago - 4 comments
Labels: bug

#325 - [Unable to re-submit task]

Issue - State: closed - Opened by govind-sah over 2 years ago - 22 comments
Labels: question

#313 - [question] GTDB setup DB failed

Issue - State: closed - Opened by lfenske-93 over 2 years ago - 9 comments
Labels: bug, question, fixed

#311 - Cannot make a datasets

Issue - State: closed - Opened by lingbingzeng1985 almost 3 years ago - 5 comments
Labels: question

#310 - [feature] Move Ariba to Bactopia Tool

Issue - State: closed - Opened by rpetit3 almost 3 years ago - 1 comment
Labels: enhancement

#309 - Issue with output from snippy

Issue - State: closed - Opened by bradle01 almost 3 years ago - 4 comments
Labels: bug, fixed

#302 - [bug] SRA accessions from Nanopore run as Illumina

Issue - State: closed - Opened by rpetit3 almost 3 years ago - 2 comments
Labels: bug, fixed

#300 - [feature] Annotation selection between Prokka or Bakta

Issue - State: closed - Opened by lfenske-93 almost 3 years ago - 11 comments
Labels: enhancement

#295 - Spades-> Roary Pangenome Gunzip error

Issue - State: closed - Opened by brross60 almost 3 years ago - 9 comments
Labels: bug

#287 - [feature] add custom reference genome to call variant

Issue - State: closed - Opened by fabgenomics almost 3 years ago - 5 comments
Labels: bug, enhancement, fixed

#286 - [bactopia-tool] mcroni for mobilized colistin resistance

Issue - State: closed - Opened by rpetit3 almost 3 years ago - 2 comments
Labels: add-bactopia-tool, fixed

#281 - [documentation] improving documentation

Issue - State: closed - Opened by rpetit3 almost 3 years ago - 1 comment
Labels: enhancement

#259 - [question] Tutorial for having Nanopore reads only in Bactopia documentation

Issue - State: open - Opened by llk578496 about 3 years ago - 19 comments
Labels: question

#241 - [bactopia-tool] Add Bactopia Tool for Gubbins

Issue - State: closed - Opened by al-kam2 over 3 years ago - 2 comments
Labels: add-bactopia-tool, fixed

#236 - [question] Search for specific gene in all the analysed genome/isolates

Issue - State: closed - Opened by kusandeep over 3 years ago - 4 comments
Labels: question

#225 - [feature] Add filters to bactopia prepare

Issue - State: closed - Opened by rpetit3 over 3 years ago - 2 comments
Labels: enhancement, v2.0.0

#200 - bactopia bowtie2 ERROR

Issue - State: closed - Opened by fritzthm almost 4 years ago - 3 comments
Labels: question