mitoNGS/MToolBox

Issues

• cat: test.lst: No such file or directory

  #114 opened 5 months ago by StavroulaPetr
  0

• no vcf file after completing mtoolbox.sh

  #104 opened 3 years ago by Pilibeibei
  2

• trouble while trying test example

  #113 opened 6 months ago by snackens
  0

• Can't generate VCF output

  #95 opened 4 years ago by simm2006
  1

• Install MToolbox samtools error

  #98 opened 4 years ago by Phillip-a-richmond
  1

• Unable to compute haplogroup when using RCRS

  #83 opened 5 years ago by Pilibeibei
  2

• Unable to compute haplogroup

  #82 opened 5 years ago by Ssocarrat
  3

• "No module named pandas" although pandas installed

  #111 opened a year ago by bengisukb
  0

• .py files "command not found"

  #110 opened a year ago by SamiaPT
  0

• How to compliance with hg38 reference panel

  #109 opened 2 years ago by Pilibeibei
  0

• Getting Error in "ASSEMBLING MT GENOMES WITH ASSEMBLEMTGENOME..." step

  #106 opened 3 years ago by Nirmal2310
  1

• Getting Error in "ASSEMBLING MT GENOMES WITH ASSEMBLEMTGENOME..." step

  #108 opened 3 years ago by Nirmal2310
  4

• Do you have an mtoolbox docker container publically available?

  #107 opened 3 years ago by ulloaa
  5

• re-mapped the variant to the rCRS reference sequence

  #105 opened 3 years ago by WZo0o
  0

• no *annotation.csv after using variants_functional_annotation.py

  #103 opened 3 years ago by Pilibeibei
  0

• assembleMTgenome.py line 484 isssue: ValueError: I/O operation on closed file

  #102 opened 3 years ago by Pilibeibei
  0

• pandas issue with python2.7

  #101 opened 3 years ago by Pilibeibei
  0

• mapExome.py not match

  #99 opened 3 years ago by Pilibeibei
  5

• HGVS named method in annotation.csv

  #100 opened 3 years ago by choumeijiao
  0

• ./MToolBox.sh: line 346: java: command not found

  #88 opened 5 years ago by smukh18
  2

• java command not found

  #91 opened 3 years ago by EricDeveaud
  1

• Out of memory error

  #97 opened 4 years ago by halimaalachram
  0

• Unable to compute haplogroup. Exit - No annotation.csv found. Exit

  #96 opened 4 years ago by moldach
  0

• vcfoutput bug

  #85 opened 5 years ago by Pilibeibei
  5

• No such file or directory: 'VCF_dict_tmp'

  #86 opened 5 years ago by PengZhangJHU
  2

• Can`t Install

  #94 opened 5 years ago by flight7777
  0

• Can`t install MToolBox, it can`t find setup.sh after setting the PATH

  #93 opened 5 years ago by flight7777
  0

• Is there any gold standard variant calls for mitochondria?

  #92 opened 5 years ago by mtorralvo
  1

• RCRS vs RSRS output

  #90 opened 5 years ago by sremuk
  2

• BAM vs FASTQ as input

  #89 opened 5 years ago by sremuk
  1

• Issue with check_files.py during installation

  #87 opened 5 years ago by robertopreste
  3

• 'None' genotypes

  #84 opened 5 years ago by cefrnch
  3

• Add hook to ReadTheDocs

  #81 opened 5 years ago by domenico-simone
  0

• Please fix error with fasta input and list assignment

  #67 opened 6 years ago by WeiWei060512
  0

• Heteroplasmic fraction

  #68 opened 6 years ago by Madelinehazel
  1

• Can MToolBox run on nanopore data(long read sequencing)?

  #69 opened 6 years ago by pradyumnasagar
  1

• MITOMAP and ClinVar annotation updates

  #70 opened 6 years ago by francisjean
  2

• bug in prioritized_variants.py

  #74 opened 6 years ago by psterk
  1

• summary.py fails when samples with 0% coverage are present

  #75 opened 6 years ago by psterk
  0

• .fastq files stay uncompressed for a long time if input is bam

  #78 opened 6 years ago by dwuab
  2

• Switched HF in high depth samples

  #79 opened 5 years ago by jalwillcox
  1

• My VCF contains virtually no 1/1 genotypes

  #80 opened 5 years ago by mocksu
  1

• parts of MToolBox don't use bundled dependencies

  #65 opened 5 years ago by 0xaf1f
  0

• why is there no HF information and reference sequence for the prioritized variants file??

  #66 opened 5 years ago by Confurious
  1

• Fasta used for haplogroups prediction (MToolBox_fixes branch)

  #71 opened 5 years ago by domenico-simone
  0

• No annotation.csv found

  #77 opened 5 years ago by Nikeeta-C
  1

• Select the MAF

  #76 opened 6 years ago by ndierckx
  5

• MToolBox-f527c5c, assembleMTgenome.py

  #72 opened 6 years ago by 3i-v
  4

• Mtoolbox.sh, issue with large number of samples

  #73 opened 6 years ago by psterk
  1

• Error in the "Assembling MT GENOMES WITH assemblemtegenome

  #64 opened 6 years ago by Confurious
  11