ImagoXV/NanoASV

Issues

• Singularity keeps looking for bin outside the container

  #68 opened 2 months ago by ImagoXV
  3

• use vsearch option to eliminate a call to awk

  #70 opened 2 months ago by frederic-mahe
  1

• No control over Porehcop cpu usage.

  #66 opened 3 months ago by ImagoXV
  0

• Docker image run with singularity. Error phyloseq R package : "Cannot open shared object"

  #61 opened 3 months ago by ImagoXV
  8

• Should remove singleton before multiple alignements

  #60 opened 3 months ago by ImagoXV
  0

• Singularity version known Issue : WARNING: could not mount /etc/localtime: not a directory

  #56 opened 3 months ago by ImagoXV
  0

• To do : Reimplement unknown sequences cluster discard

  #57 opened 3 months ago by ImagoXV
  1

• Need to specify software versions for reproducibility

  #33 opened 4 months ago by ImagoXV
  1

• Subsampling before chimera detection

  #29 opened 4 months ago by ImagoXV
  1

• Binary Realease ?

  #49 opened 4 months ago by ImagoXV
  3

• script should test for the presence of required binaries

  #52 opened 4 months ago by frederic-mahe
  1

• Chimera detection #2

  #27 opened 9 months ago by ImagoXV
  6

• Need to update bwa to bwa-mem2

  #34 opened 8 months ago by ImagoXV
  3

• add a citation file

  #42 opened 8 months ago by frederic-mahe
  5

• First Test on real dataset

  #26 opened 8 months ago by ImagoXV
  3

• Indexing parallelisation ?

  #12 opened 9 months ago by ImagoXV
  1

• Checkpoint system

  #22 opened 8 months ago by ImagoXV
  1

• Replace NanoFilt and Porechop with Chopper

  #17 opened 9 months ago by ImagoXV
  3

• Running nanoasv smoothly

  #40 opened 8 months ago by ImagoXV
  0

• aarch64 - MK1C fail on minimal dataset

  #39 opened 8 months ago by ImagoXV
  1

• Not running on aarch64

  #36 opened 8 months ago by ImagoXV
  1

• Phyloseq installation is as long as SILVA indexing

  #35 opened 8 months ago by ImagoXV
  0

• Subsampling before chimare detection

  #30 opened 8 months ago by ImagoXV
  1

• Concatenation step is long, need to be executud in parrallel

  #25 opened 9 months ago by ImagoXV
  1

• Produce phylo tree for phyloseq object

  #21 opened 9 months ago by ImagoXV
  2

• Add chimera detection step

  #18 opened 9 months ago by ImagoXV
  2