moshi4/FastDTLmapper

Issues

• FileNotFoundError

  #68 opened 2 years ago by wangchengww
  1

• ANgst Folder is not created

  #65 opened 2 years ago by jaresoles
  1

• diamoand error

  #67 opened 2 years ago by suresh2014
  4

• FastDTLmapper error caused by python2.7 dependency

  #66 opened 2 years ago by moshi4
  12

• IQ-TREE randomly resolved multifurcation is not appropriate for DTL reconciliation

  #5 opened 3 years ago by moshi4
  1

• Add Brn/Dup/Trn plot in plot_gain_loss_map figure

  #62 opened 3 years ago by moshi4
  1

• Change gain/loss plot map style in leaf node (plot_gain_loss_map)

  #60 opened 3 years ago by moshi4
  1

• Use GNU parallel log output function (--results option)

  #25 opened 3 years ago by moshi4
  1

• Refactor: UtilSeq class should be split into two classes, UtilFasta and UtilGenbank.

  #29 opened 3 years ago by moshi4
  0

• Refactor: config.py is complex and has several responsibility

  #31 opened 3 years ago by moshi4
  0

• Document: update pyproject.toml metadata

  #33 opened 3 years ago by moshi4
  0

• Refactor: Strict type hints check

  #35 opened 3 years ago by moshi4
  0

• Bug: Input filename cannot contain '.' (dot) character

  #45 opened 3 years ago by moshi4
  0

• Add FastDTLmapper main integration test

  #47 opened 3 years ago by moshi4
  0

• Use origin fasta annotation to unique serial id

  #51 opened 3 years ago by moshi4
  0

• IQ-TREE parallel processing using Gnu Parallel cause an overload on CPU

  #53 opened 3 years ago by moshi4
  1

• AnGST cannot handle "|" character in fasta annotation

  #54 opened 3 years ago by moshi4
  0

• Add publication-ready gain/loss map plot function

  #56 opened 3 years ago by moshi4
  0

• Add GOEA test code

  #49 opened 3 years ago by moshi4
  0

• Add PyPI automated deploy github actions

  #38 opened 3 years ago by moshi4
  0

• Add automated pytest coverage github actions

  #39 opened 3 years ago by moshi4
  0

• Add python formatter linter github actions

  #40 opened 3 years ago by moshi4
  0

• Add test code

  #37 opened 3 years ago by moshi4
  0

• Change project structure 'fastdtlmapper' to 'src/fastdtlmapper'

  #23 opened 3 years ago by moshi4
  0

• Add project details to pytproject.toml

  #24 opened 3 years ago by moshi4
  0

• Bug: AnGST script shebang does not detect python2

  #22 opened 3 years ago by moshi4
  0

• Change current direcotory strucuture to pytest testable & packageable

  #20 opened 3 years ago by moshi4
  0

• GOEA result summary report is desirable

  #8 opened 3 years ago by moshi4
  1

• Provide a list of predicted results for horizontal gene transfer for each gene

  #11 opened 3 years ago by moshi4
  0

• Add GOEA plot user select color option

  #6 opened 3 years ago by moshi4
  1

• Add optional argument of bootstrap tree number limitation in AnGST running

  #10 opened 3 years ago by moshi4
  0

• Plot only specified depth of GOterm in GOEA result

  #13 opened 3 years ago by moshi4
  0

• Plot parameters in goea.py must be instance variable

  #7 opened 3 years ago by moshi4
  0

• Add: GO enrichment analysis function

  #3 opened 3 years ago by moshi4
  0