Russel88/CRISPRCasTyper

Issues

• (Question) How can I plot svg post-hoc after a run?

  #49 opened 4 months ago by jolespin
  1

• (Question) provide GFF file for pre computed gene calls?

  #45 opened 6 months ago by jolespin
  5

• If minced detects a CRISPR with N's in the repeat sequence

  #48 opened 4 months ago by Russel88
  0

• XGBoost model incompatible

  #46 opened 5 months ago by Matt-BF
  8

• CCTyper results

  #43 opened 8 months ago by elozanoe
  4

• Orphan CRISPR definition

  #44 opened 8 months ago by bio-unach
  2

• cctyper dies with missing files

  #14 opened 3 years ago by jnesme
  4

• Include I-B CAST loci

  #13 opened a year ago by Russel88
  0

• Execution against protein fasta and gff

  #33 opened 2 years ago by xvtyzn
  2

• castyping.py having an issue with positional arguments.

  #40 opened a year ago by jamesrgurney
  2

• Creating empty files when there's no data

  #39 opened a year ago by nataquinones
  1

• Option to use Prodigal-gv

  #37 opened a year ago by snayfach
  0

• Meaning of asterisk at the end of protein sequence

  #38 opened a year ago by Smiriti-Gupta
  1

• Different results from CRISPR Cas typer web server and standalone version

  #34 opened a year ago by Smiriti-Gupta
  5

• 

  #36 opened a year ago by Smiriti-Gupta
  0

• Error when running cctyper: sed: cannot rename <output filename>/sed78a7GM: Permission denied

  #35 opened a year ago by jdcfc
  2

• FileNotFoundError: blast.tab

  #30 opened 2 years ago by TianyiChang
  3

• A complement to CRISRPRCasFinder or its own thing?

  #32 opened 2 years ago by JavierFFavieres
  1

• Complete genome and draft genome

  #31 opened 2 years ago by illusion-a
  2

• No database with conda install?

  #29 opened 2 years ago by nicholascdove
  2

• Error in BLASTing for CRISPR near cas operons

  #27 opened 2 years ago by linzhl1
  4

• CrisprCasTyper webserver

  #28 opened 2 years ago by ShinyBasu
  1

• Expose minced options

  #26 opened 2 years ago by jimmyliu1326
  1

• Extract spacer coordinates

  #15 opened 2 years ago by genomesandMGEs
  3

• add repeated sequence to repeats.fa

  #25 opened 2 years ago by fabgenomics
  1

• Problems running the program

  #24 opened 2 years ago by JavierFFavieres
  3

• faa file of individual Cas proteins?

  #21 opened 2 years ago by mhyleung
  7

• Docker for cctyper

  #23 opened 2 years ago by mhyleung
  1

• Multiple cctyper runs on the same contig giving different outputs?

  #22 opened 2 years ago by mhyleung
  2

• Cas6 in red in visualization?

  #20 opened 2 years ago by mhyleung
  1

• Question about spacer direction

  #19 opened 3 years ago by Dfvandenberg
  2

• About spacer sequences

  #18 opened 3 years ago by wfgui
  1

• alternative to minced?

  #17 opened 3 years ago by ltcall
  1

• File upload fail on web server with Chrome browser

  #6 opened 3 years ago by Russel88
  1

• Warning messages while running

  #16 opened 3 years ago by LeeNicha
  3

• Add support for numeric fasta headers

  #12 opened 3 years ago by Russel88
  1

• Speed up CRISPR stats calculation

  #11 opened 3 years ago by Russel88
  1

• Assembly accession in web server

  #10 opened 3 years ago by Russel88
  1

• New V-A variants

  #8 opened 3 years ago by Russel88
  1

• "Orphan" CRISPRs near low-quality single-effector HMM match -> Putative CRISPR-Cas

  #4 opened 4 years ago by Russel88
  0

• Fusion proteins

  #9 opened 4 years ago by Russel88
  0

• Make it possible to enhance plot with custom HMM database

  #7 opened 4 years ago by Russel88
  1

• Optimize hybrid system annotation

  #5 opened 4 years ago by Russel88
  0

• Indicate completion in output

  #1 opened 4 years ago by Russel88
  1

• Refseq/Genbank accession as input

  #3 opened 4 years ago by Russel88
  1

• Optimize plot expansions

  #2 opened 4 years ago by Russel88
  0