Ecosyste.ms: Issues

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GitHub / nick-youngblut/gtdb_to_taxdump issues and pull requests

#23 - KeyError: 'Cannot find GCA003697015.1 accession in names.dmp'

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

#21 - KeyError: 'Cannot find "ncbi_taxonomy"'

Issue - State: closed - Opened by jiaojiaoguan over 1 year ago - 3 comments

#20 - ncbi-gtdb_map.py (GTDB => NCBI) results in all NAs

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

#19 - Make filename conversion more robust

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

#18 - Fix bug in `acc2gtdb_tax.py`

Pull Request - State: closed - Opened by Sidduppal over 2 years ago - 3 comments

#17 - KeyError with `acc2gtdb_tax.py`

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

#16 - AttributeError: module 'gtdb_to_taxdump' has no attribute 'Dmp'

Issue - State: closed - Opened by Sidduppal over 2 years ago - 9 comments

#15 - Question about ncbi-gtdb_map.py

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

#14 - lineage2taxid error (module 'gtdb_to_taxdump' has no attribute 'Dmp')

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

#13 - Unclassified sequences TAXID

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

#12 - Add sequence accession to TAXID conversion tool

Pull Request - State: closed - Opened by maxibor almost 3 years ago - 2 comments

#11 - Sync version across modules

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

#10 - Fixed import error and regex error

Pull Request - State: closed - Opened by dportik about 3 years ago - 1 comment

#9 - Error in ncbi-gtdb_map.py using NCBI taxids

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

#8 - Preserve IDs

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

#7 - ncbi-gtdb_map.py fails on importing networkx.algorithms.lowest_common_ancestors

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

#6 - how to install?

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

#5 - KeyError: 'orig_name'

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

#4 - GTDB to NCBI mapping results in empty taxa

Issue - State: closed - Opened by Askarbek-orakov about 4 years ago - 10 comments

#3 - "gtdb_to_diamond.py" generates an empty "gtdb_all.faa.gz" file

Issue - State: closed - Opened by Jigyasa3 about 4 years ago - 3 comments

#2 - Using different starting NCBI taxonomy gives different results

Issue - State: closed - Opened by Jigyasa3 about 4 years ago - 8 comments

#1 - accelerate rank query

Pull Request - State: closed - Opened by shenwei356 about 5 years ago - 1 comment