takaram kofam_scan issues

takaram / kofam_scan

CLI tool to annotate genes with KOfam

https://www.genome.jp/tools/kofamkoala/

MIT License

66 stars 11 forks source link

issues

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config.rb:26:in `initialize': undefined method `map' for "profile:profiles":String (NoMethodError) }.merge(initial_values.map { |k, v| [k.intern, v] }.to_h) Did you mean? tap

#38 11916090 opened 4 months ago
1
Unknown KO Error

#37 Kekananen closed 4 months ago
1
Prokaryotic genome, eukaryotic genome, viral genome

#36 qkqk-hub opened 5 months ago
1
wrong number of arguments

#35 WJT0925 opened 6 months ago
1
Issue when I run the analysis

#34 queirozhanna opened 7 months ago
2
Inconsistent output formatting

#33 spitfiredd opened 9 months ago
0
[Question] What criteria are used to determine significant HMMER hits?

#32 jolespin opened 11 months ago
1
Conda environment definition

#31 cmkobel opened 1 year ago
0
Guidance for KOfam score threshold adjustment (threshold-scale)

#30 Bernhard-Steindl opened 1 year ago
0
Core dumped error when running kofamscan

#29 arijitnus opened 1 year ago
0
kofam_scan multiple outputs at same time

#28 imonteroo opened 1 year ago
0
parallel.rb:28:in `write': Broken pipe (Errno::EPIPE)

#27 jowodo closed 1 year ago
1
query.fasta

#26 km-2021 opened 1 year ago
0
prokaryote

#25 gabridinosauro closed 2 years ago
1
Incorrect hmmscan settings cause popen3 to hang rather than an error

#24 lguangyu opened 2 years ago
2
The exec_annotaion can run on the directory that it belong instead of other directory

#23 honghh2018 opened 2 years ago
0
What is a good e-value cut-off?

#22 mw55309 opened 3 years ago
2
profile.yml example

#21 thierryjanssens opened 3 years ago
0
The set of E-value (-E) did not work.

#20 Jiulong-Zhao opened 3 years ago
2
hmmsearch was not run successfully

#19 hahafengxiang opened 3 years ago
15
is kofam scan running correctly - tmp directory

#18 soilmicrobiome opened 3 years ago
0
undefined method `end_with?' for nil:NilClass (NoMethodError)

#17 lijing28101 closed 3 years ago
3
Ruby error when running the kofam workflow

#16 ParkvilleData opened 3 years ago
2
Bump json from 2.1.0 to 2.3.1

#15 dependabot[bot] opened 3 years ago
0
Reorganize code and don't use require_relative in exec_annotation

#14 duboism opened 4 years ago
1
Bacteria & Archaea hmms

#13 lijie04 opened 4 years ago
0
Parsing output file

#12 timregan closed 4 years ago
1
Mmseqs profiles for speed up

#11 SilasK opened 4 years ago
3
Hit KO that not found in KEGG web?

#10 lijie04 closed 4 years ago
1
How to compare multi hmm hits from one protein sequence

#9 lijie04 closed 4 years ago
1
Error: Unknown KO:

#8 timregan closed 4 years ago
2
bin/lib/kofam_scan/parallel.rb:28:in `write': Broken pipe (Errno::EPIPE)

#7 PandengWang closed 2 years ago
4
How to deal hmm files without a threshold & F-measure info

#6 lijie04 closed 4 years ago
3
default value of --threshold-scale?

#5 lijie04 closed 4 years ago
1
default evalue?

#4 soilmicrobiome opened 4 years ago
3
Which filtering parameters are recommended？

#3 slbai01 opened 4 years ago
1
ruby/2.6.0/open3.rb:213:in `spawn': Permission denied (Errno::EACCES)

#2 Jigyasa3 closed 4 years ago
2
suggestion to implement a "tmp directory already exists" warning

#1 AstrobioMike opened 4 years ago
1