Arkadiy-Garber/FeGenie

Issues

• running programm with reference database for blast searches throws error

  #46 opened 6 months ago by ckeuschn
  2

• Permission denied when moving files

  #36 opened 3 years ago by aidanfoo96
  6

• Error Syntax warning and location

  #48 opened 6 months ago by anestiskos
  2

• No protein sequence for Cyc2

  #47 opened 6 months ago by EvaP29
  2

• geneSummary output protein sequence EMPTY

  #45 opened 7 months ago by ckeuschn
  2

• error depth = open("%s/%s.depth" % (outDirectory, cell)) | HELP PLS.

  #40 opened 2 years ago by DrRumble
  1

• About iron-sulfur proteins

  #41 opened 2 years ago by maocheng2020
  1

• Use of ORFs

  #42 opened 2 years ago by STabuteau
  2

• where was the data for protein DmkA obtained from？

  #43 opened 2 years ago by xdli009
  1

• 'Namespace' object has no attribute 'hbm'

  #44 opened a year ago by Sxxnwei
  1

• Error in hclust(d = dist(x = fegenie.scaled))

  #34 opened 3 years ago by manik-123
  1

• Renamed contigs?

  #39 opened 2 years ago by JBuongio
  4

• geneSummary file

  #38 opened 2 years ago by JBuongio
  3

• Error - ValueError: could not convert string to float: 'EMPTY'

  #32 opened 3 years ago by JBuongio
  38

• Rewrite using a workflow manager (snakemake, nextflow)

  #37 opened 3 years ago by phiweger
  0

• false negatives?

  #35 opened 3 years ago by metalichen
  3

• DIAMOND Verification: local variable 'idxDict' referenced before assignment

  #30 opened 3 years ago by mwittep
  5

• Heatmap has same values regardless of what inflation factor I use

  #33 opened 3 years ago by patrickmon38
  2

• How to use -bams for a coassembly of some metagenomes

  #10 opened 5 years ago by pdalcinmartins
  4

• Why the FeGenie installed by conda and the FeGenie installed manually work very differently？

  #31 opened 3 years ago by xdli009
  8

• Tagged release and license file

  #25 opened 4 years ago by npavlovikj
  17

• Error "hmmsearch: not found ... local variable 'hmmout' referenced before assignment" while running FeGenie

  #29 opened 4 years ago by anapopov
  5

• Regarding --all_results option

  #27 opened 4 years ago by ShailNair
  2

• Unable to run FeGenie.py

  #24 opened 4 years ago by yue-clare-lou
  2

• Issue with Installation

  #23 opened 4 years ago by 18AS
  4

• relative abundace?

  #22 opened 4 years ago by plant272
  1

• Error when cluster ORFs

  #20 opened 4 years ago by Rachael-16
  1

• bam option looks for jgi_summarize_bam_contig_depths

  #17 opened 4 years ago by gabriellerocap
  3

• generate multiple output types and/or reuse intermediate files

  #18 opened 4 years ago by gabriellerocap
  3

• ValueError: could not convert string to float: 'EMPTY' in -bams option

  #19 opened 4 years ago by gabriellerocap
  7

• Easy install with conda didn't locate packages

  #16 opened 4 years ago by Rene-Hoover
  3

• Where to hmms/iron

  #15 opened 4 years ago by bkemish
  1

• Annotation collisions and confusion about HMM model names

  #14 opened 4 years ago by karoraw1
  2

• ValueError: invalid literal for int() with base 10: 'protein'

  #13 opened 5 years ago by pdalcinmartins
  3

• FileNotFoundError on "Easy Installation (if you don't have Conda)"

  #12 opened 5 years ago by diegusleik
  1

• Undetermined error

  #11 opened 5 years ago by CLMonteil
  1

• IndexError during Final processing of output

  #9 opened 5 years ago by zreitz
  2

• 'rm: cannot remove (...): Directory not empty' error?

  #3 opened 5 years ago by GeoMicroSoares
  3

• Option to output prodigal nucleotide file?

  #4 opened 5 years ago by ngilber3
  3

• An error with FeGenie installed without conda (hmm path problem)

  #7 opened 5 years ago by ilnamkang
  5

• Normalized gene abundances in 'FeGenie-heatmap-data.csv'?

  #2 opened 5 years ago by Anto007
  2