elizabethmcd/metabolisHMM issues and pull requests

#60 - Updated python issues

Issue - State: closed - Opened by susheelbhanu 7 months ago - 1 comment

#59 - single-marker-phylogeny > view on the tree

Issue - State: open - Opened by elizabethmcd about 3 years ago

#58 - Check for - in genome names

Issue - State: open - Opened by elizabethmcd about 3 years ago

#57 - Error running summarize-metabolism

Issue - State: closed - Opened by bbaker567 about 3 years ago - 2 comments

#56 - SciPy Package Dependencies and Updates

Issue - State: open - Opened by elizabethmcd about 3 years ago

#55 - markers and phylogeny

Issue - State: open - Opened by elizabethmcd about 3 years ago - 1 comment

#54 - Retrieving protein-coding sequence from a giving function

Issue - State: open - Opened by Streptomyces1 almost 4 years ago - 1 comment

#53 - Hmmsearch crashes at search-custom-markers

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

#52 - Fasta formating

Issue - State: closed - Opened by Streptomyces1 over 4 years ago - 3 comments

#51 - Demo dataset

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

#50 - TOL DB

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

#49 - genome names cannot contain dashes?

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

#48 - dev branch

Issue - State: open - Opened by elizabethmcd over 4 years ago - 1 comment

#47 - Include missing files in sdist

Pull Request - State: open - Opened by thatch over 4 years ago

#46 - Missing files in sdist

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

#45 - Create a conda release

Issue - State: open - Opened by vinisalazar almost 5 years ago - 12 comments

#44 - make-heatmap.R script location?

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

#43 - fixes

Issue - State: closed - Opened by elizabethmcd about 5 years ago

#42 - Kofam search yields TC bit threshhold error

Issue - State: closed - Opened by morgvevans about 5 years ago - 2 comments

#41 - The directory of curated metabolic markers could not be found.

Issue - State: open - Opened by sarah872 about 5 years ago - 22 comments

#40 - no hmmersearch for summarize-metabolism

Issue - State: closed - Opened by Thexiyang about 5 years ago - 10 comments

#39 - version numbers

Issue - State: closed - Opened by elizabethmcd about 5 years ago - 1 comment

#38 - Documentations and figures

Issue - State: closed - Opened by elizabethmcd about 5 years ago - 1 comment

#37 - Additions to create-genome-phylogeny

Issue - State: closed - Opened by elizabethmcd about 5 years ago - 2 comments

#36 - prodigal quiet

Issue - State: closed - Opened by elizabethmcd about 5 years ago - 1 comment

#35 - installation instructions

Issue - State: closed - Opened by elizabethmcd about 5 years ago - 1 comment

#34 - R script options

Issue - State: closed - Opened by elizabethmcd about 5 years ago - 2 comments

#33 - iTOL options

Issue - State: closed - Opened by elizabethmcd about 5 years ago

#32 - single marker corresponding tree making

Issue - State: closed - Opened by elizabethmcd over 5 years ago - 1 comment

#31 - heatmap row order

Issue - State: closed - Opened by elizabethmcd over 5 years ago

#30 - programs installed

Issue - State: closed - Opened by elizabethmcd over 5 years ago

#29 - plotting option

Issue - State: closed - Opened by elizabethmcd over 5 years ago

#28 - iTol metadata files for phylogeny workflows

Issue - State: closed - Opened by elizabethmcd over 5 years ago

#27 - check for markers download

Issue - State: closed - Opened by elizabethmcd over 5 years ago

#26 - connect to kofamkoala

Issue - State: closed - Opened by elizabethmcd over 5 years ago - 3 comments

#25 - output format

Issue - State: closed - Opened by elizabethmcd over 5 years ago

#24 - Option for corresponding tree from single phylogeny

Issue - State: closed - Opened by elizabethmcd over 5 years ago
Labels: enhancement

#23 - Missing markers for summaries

Issue - State: closed - Opened by elizabethmcd over 5 years ago - 4 comments
Labels: bug

#22 - Reformatting fasta files

Issue - State: closed - Opened by elizabethmcd over 5 years ago

#21 - Print genome if missing more than # of markers for phylogeny

Issue - State: closed - Opened by elizabethmcd over 5 years ago

#20 - Metabolic Summary heatmap

Issue - State: closed - Opened by elizabethmcd over 5 years ago - 3 comments

#19 - Major Release Tasks

Issue - State: closed - Opened by elizabethmcd over 5 years ago

#18 - Documentation

Issue - State: closed - Opened by elizabethmcd over 5 years ago

#17 - Any Pathway > Visualization

Issue - State: closed - Opened by elizabethmcd over 5 years ago

#16 - Metabolic Summary > Visualization

Issue - State: closed - Opened by elizabethmcd over 5 years ago

#15 - Concatenate script

Issue - State: closed - Opened by elizabethmcd over 5 years ago - 1 comment

#14 - refseq hits

Issue - State: closed - Opened by elizabethmcd over 5 years ago - 1 comment

#13 - tfdA test case

Issue - State: closed - Opened by elizabethmcd over 5 years ago - 1 comment

#12 - Presence/absence among a given set of genomes

Issue - State: closed - Opened by elizabethmcd over 5 years ago - 2 comments

#11 - Directory names

Issue - State: closed - Opened by elizabethmcd over 5 years ago - 2 comments

#10 - genome directory for metabolic summary

Issue - State: closed - Opened by elizabethmcd over 5 years ago

#9 - trimming

Issue - State: closed - Opened by elizabethmcd almost 6 years ago - 3 comments

#8 - RaxML implementation

Issue - State: closed - Opened by elizabethmcd almost 6 years ago

#7 - Concatenate alignments

Issue - State: closed - Opened by elizabethmcd almost 6 years ago

#6 - Ribosomal markers for Archaea vs Bacteria

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

#5 - Pretty-fy

Issue - State: closed - Opened by elizabethmcd about 6 years ago

#4 - Single Marker Analysis

Issue - State: closed - Opened by elizabethmcd about 6 years ago - 1 comment

#3 - Documentation

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

#2 - Full matrix for metabolic results

Issue - State: closed - Opened by elizabethmcd about 6 years ago - 1 comment

#1 - Markers w/o -tc option

Issue - State: closed - Opened by elizabethmcd about 6 years ago - 1 comment

GitHub / elizabethmcd/metabolisHMM issues and pull requests