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Issues list

Build new 2018 UNITE ghost trees
#95 opened Mar 13, 2019 by JTFouquier
Update Python version for ghost-tree compatibility with QIIME 2 2019.1 release bug high priority
#94 opened Feb 18, 2019 by JTFouquier
2
Update readme to include pictures; refs to QIIME 2 analysis steps
#90 opened Aug 16, 2018 by JTFouquier
ghost-tree tip file name needs to be consistent quick fix
#89 opened Jun 6, 2018 by JTFouquier
Analysis: Determine effects of clustering at different levels enhancement
#88 opened May 10, 2018 by JTFouquier
Update ghost-tree docs (including removing docs for use in QIIME 1) documentation
#87 opened May 10, 2018 by JTFouquier
Extract fungi from Silva database is 'genus' specific; Fix this for other ranks high priority
#86 opened May 7, 2018 by JTFouquier
Select the longest sequence within each genus enhancement
#85 opened Apr 24, 2018 by vmikk
1
Allow option to print ascii art nice to have
#84 opened Apr 23, 2018 by JTFouquier
Remove dependency on OTU picking high priority
#82 opened Mar 15, 2018 by JTFouquier
2
Improve taxonomy line issues in files (i.e. allow taxonomy to be in different locations) enhancement
#79 opened Jan 31, 2017 by JTFouquier
1
write script to automate tree building enhancement
#78 opened Dec 12, 2016 by JTFouquier
Consider adding user suggestions and provided scripts by author "R.A." enhancement
#74 opened Sep 30, 2016 by JTFouquier
make get_otus_from_ghost_tree.py more elegant (users shouldn't have to edit the script...) quick fix
#68 opened Mar 30, 2016 by JTFouquier
Build trees with new Silva (foundation tree) release
#64 opened Feb 16, 2016 by JTFouquier
Add same filter step for extensions as foundation tree high priority
#59 opened Dec 6, 2015 by JTFouquier
Add option for user to scale branch lengths high priority
#57 opened Dec 1, 2015 by JTFouquier
4
Allow option for Generalized Time Reversible (GTR) model to be selected instead of Jukes Cantor enhancement
#55 opened Nov 7, 2015 by JTFouquier
Try adding a Click progress bar (for large files ghost-tree takes some time) nice to have
#51 opened Aug 15, 2015 by JTFouquier
1
add ascii_art demo using skbio to ghost-tree tutorial nice to have
#50 opened Aug 15, 2015 by JTFouquier
ghost-tree output files are in a folder now; provide alternative option to name files enhancement
#49 opened Jul 23, 2015 by JTFouquier
6
analyze the effect of grafting trees in the wrong place
#40 opened May 6, 2015 by gregcaporaso AfterSubmission
explore scaling of extension tree branch lengths relative to foundation tree question
#39 opened May 6, 2015 by gregcaporaso BeforeSubmission
Add warning into the docs about potential for clustered sequences to be mislabeled documentation high priority
#36 opened May 6, 2015 by wasade AfterSubmission
Improve code complexity in ghosttree.scaffold invalid
#33 opened May 6, 2015 by JTFouquier AfterSubmission
1
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