gear-genomics/tracy

Issues

• basecall problem

  #91 opened 7 months ago by yuanzhao0502
  2

• Hemizygous calls

  #90 opened 9 months ago by abedkurdi
  2

• Can tracy's consensus option be updated?

  #87 opened a year ago by zahidul-islam-nahid
  0

• Options for specifying overlap, 'fracmatch' in consensus subcommand

  #85 opened a year ago by dhoogest
  0

• docker images differences between quay.io and dockerhub

  #83 opened a year ago by cpauvert
  4

• Issues Installing/Compiling on Mac

  #80 opened a year ago by adityanprasad
  2

• `Couldn't anchor the Sanger trace in the selected reference genome.` error in tracy but not in Indigo

  #79 opened 2 years ago by jacorvar
  3

• Annotation error in the results generated sanger sequencer

  #76 opened 2 years ago by Scarlet-001
  4

• Base quality and consensus generation

  #58 opened 3 years ago by nriddiford
  7

• [feature request] Further options to control trimming with consensus

  #65 opened 2 years ago by blex-max
  5

• -p signal to noise ratio

  #66 opened 3 years ago by blex-max
  1

• Bioconda tracy package runs very slowly where precompiled binary is fast

  #63 opened 3 years ago by blex-max
  2

• terminate called while attempting to run tracy on WSL

  #64 opened 3 years ago by blex-max
  1

• Indigo

  #61 opened 3 years ago by Donandrade
  4

• Cannot execute Tracy binary on mac

  #62 opened 3 years ago by blex-max
  5

• How can I provide a file with a list of input files to tracy?

  #59 opened 3 years ago by SheepwormJM
  2

• Decompose doesn't give bcf file give json instead

  #54 opened 3 years ago by rahulAAI
  3

• Tracy assemble time

  #39 opened 3 years ago by nriddiford
  1

• Can tracy assemble trim option be disabled?

  #53 opened 3 years ago by stroma289
  1

• SCF version greater 2.9 required!

  #51 opened 3 years ago by blex-max
  4

• How are the base quality score generated?

  #50 opened 3 years ago by nriddiford
  3

• Only single-chromosome FASTA files are supported

  #52 opened 3 years ago by asaki1986
  1

• Support for generating consensus sequence from forward and reverse sanger

  #46 opened 3 years ago by blex-max
  7

• Alignment result differ when using indexed and unindexed genome

  #41 opened 3 years ago by pvanheus
  3

• Consensus not assembling properly

  #35 opened 3 years ago by bomsterr
  1

• How to get the name out of a trace file?

  #38 opened 3 years ago
  2

• "File lacks basecalls!" error

  #42 opened 3 years ago by hexavier
  1

• Can Tracy train itself to take into account previously identified alleles?

  #44 opened 3 years ago by SheepwormJM
  1

• Triploids?

  #45 opened 3 years ago by SheepwormJM
  1

• What is the meaning of the `trim` parameter in the `assemble` command. Trim value 1 and 9 produced identical consensus sequences.

  #43 opened 3 years ago by TatyanaVl
  2

• Sample data for testing tracy

  #40 opened 3 years ago by pvanheus
  1

• Couldn't anchor the Sanger trace in the selected reference genome

  #34 opened 3 years ago by muntajihad
  3

• Not human samples

  #37 opened 3 years ago by Kanyerezi30
  2

• How is a strand orientation in de novo assemble outputs determined?

  #36 opened 4 years ago by nukaemon
  4

• tracy assemble options.

  #29 opened 4 years ago by YoungYu5
  2

• consensus sequence in out.vertical file

  #33 opened 4 years ago by nukaemon
  2

• --incref (to break consensus ties) is not a feature yet

  #30 opened 4 years ago by bomsterr
  1

• consensus not obtained from majority of bases present

  #27 opened 4 years ago by bomsterr
  4

• rs identifiers

  #21 opened 4 years ago by Kanyerezi30
  5

• Meaning of Trimming Stringency levels

  #12 opened 4 years ago by ammaraziz
  3

• Can't download latest tracy 0.5.7 via conda

  #16 opened 4 years ago by bomsterr
  16

• Cannot perform de novo assembly

  #19 opened 4 years ago by Linkrw12
  2

• Peak percentage cut off

  #18 opened 4 years ago by mcrone
  2

• sequence and qual not of the same length

  #17 opened 4 years ago by tuspjo
  5

• tracy: command not found

  #14 opened 4 years ago by bomsterr
  3

• Kernel too old

  #13 opened 4 years ago by roomfortwo
  1

• cannot anchor to reference genome

  #15 opened 4 years ago by EA2106-Universite-Francois-Rabelais
  3

• Returning error code from bcftools

  #3 opened 4 years ago by OgnjenMilicevic
  2

• Basecall on ab1 files with empty corrected signals (DATA9-12)

  #7 opened 4 years ago by bdolmo
  1

• Old index data format. Please rebuild your reference genome index!

  #4 opened 5 years ago by yangmqglobe
  2