csmiller/EMIRGE

Issues

• emirge_makedb.py add regex to allow for Silva `SSURef_N[Rr]99_tax...`

  #41 opened 4 years ago by mlhoggard
  0

• IndexError: Out of bounds on buffer access (axis 1)

  #27 opened 8 years ago by rbeinart
  7

• EMIRGE compatible with bowtie v.1+ ?

  #33 opened 8 years ago by jvollme
  2

• Bowtie 1.2 breaks `emirge`

  #36 opened 8 years ago by andersgs
  1

• Is this a live project?

  #39 opened 6 years ago by tseemann
  1

• IndexError: Out of bounds on buffer access (axis 0)

  #38 opened 7 years ago by Arkadiy-Garber
  1

• EMIRGE exit without an error message after completing iteration 0.

  #35 opened 8 years ago by ETaSky
  1

• emirge_makedb.py: please add an argument-option for providing pre-downloaded SILVA-db

  #34 opened 8 years ago by jvollme
  2

• Trouble resuming from completed iteration

  #32 opened 8 years ago by ppericard
  0

• techical difference between emirge and emirge_amplicon

  #31 opened 8 years ago by yxxue
  0

• Unexpected crash at 17th iteration

  #30 opened 8 years ago by ppericard
  2

• EMIRGE method choice

  #28 opened 8 years ago by domenico-simone
  1

• Candidate db file dead link

  #29 opened 8 years ago by ppericard
  1

• incompatiblility of emirge_rename_fasta.py with new version of biopython?

  #26 opened 8 years ago by rmueller35
  1

• Can EMIRGE work with FASTA files?

  #16 opened 8 years ago by audy
  2

• Inordinate memory usage

  #24 opened 8 years ago by cmorganl
  5

• EMIRGE should exit more gracefully if 0 sequences are reconstructed

  #9 opened 12 years ago by csmiller
  3

• got errors when running emirge_amplicon.py

  #23 opened 9 years ago by yxxue
  5

• EMIRGE should work with SOLiD / colorspace reads

  #6 opened 9 years ago by csmiller
  0

• Segmentation fault error

  #14 opened 9 years ago by kgwin1
  0

• Crash in Emirge amplicon

  #15 opened 9 years ago by ctSkennerton
  4

• Use setuptools to simplify installation

  #17 opened 9 years ago by JMBattista
  1

• EMIRGE dependencies

  #18 opened 9 years ago by aslett1
  3

• EMIRGE Amplicon: n_alignments not intialized

  #19 opened 9 years ago by TheOneHyer
  1

• Error IndexError: index 1399 out of bounds 0<=index<0

  #13 opened 12 years ago by kgwin1
  1

• Reporting base probabilities in reconstructed sequences

  #10 opened 12 years ago by csmiller
  0

• Non-paired end data

  #8 opened 12 years ago by fangly
  2

• EMIRGE presets and environmental variable defaults

  #7 opened 12 years ago by csmiller
  0

• EMIRGE should work with single-end data

  #5 opened 13 years ago by csmiller
  0

• move to usearch v4

  #3 opened 13 years ago by csmiller
  0

• EMIRGE should be indel-aware, and work with 454 reads.

  #1 opened 14 years ago by csmiller
  0

• multithreading the non-mapping calculations

  #4 opened 14 years ago by csmiller
  0

• reduce memory usage via sparse matrices

  #2 opened 14 years ago by csmiller
  0