vrmarcelino/CCMetagen

Issues

• error in taxdump.tar.gz

  #61 opened 2 months ago by igsbma
  4

• No such file or directory error

  #67 opened 2 months ago by jeremysutherland
  3

• Database headers

  #63 opened 3 months ago by vinisalazar
  4

• error "out of memory"

  #66 opened 5 months ago by tulikasriv26
  7

• IndexError: list index out of range

  #55 opened 7 months ago by pedres
  4

• Prebuilt indexes unavailable

  #60 opened 9 months ago by MortenEneberg
  10

• How much memory does kma require?

  #54 opened a year ago by hehanhhh
  3

• download the "ncbi_nt_no_env_11jun2019" database error

  #50 opened a year ago by hehanhhh
  5

• ValueError for taxid when using custom database

  #53 opened a year ago by brambloemen
  2

• Indexing custom database returns empty *.length.b file

  #51 opened a year ago by longwayl
  1

• /bin/sh: 1: ktImportText: Permission denied

  #52 opened a year ago by lichen-fungus
  3

• Unexpected end of file and Malformed input error

  #49 opened a year ago by Rohit-Satyam
  2

• TypeError: 'NoneType' object is not iterable

  #48 opened a year ago by fernanarr
  7

• 310 Segmentation fault (core dumped)

  #46 opened a year ago by taniagmangolini
  2

• Found very few number of fungi

  #45 opened a year ago by DrYoungOG
  1

• Discrepancy on the number of fragments between *ccm.csv and *kmaout.frag.

  #44 opened a year ago by anacarolsoares
  5

• Something Error of KMA

  #42 opened a year ago by TaoCheng98
  7

• When using a custom DB, metagen.py -r nt doesn't recognise any NCBI taxa

  #40 opened a year ago by Steven-Kemp
  2

• Unable to unzip the downloaded database

  #38 opened a year ago by Rohit-Satyam
  11

• Read error in KMA Mapping

  #37 opened a year ago by tuck82er
  5

• Total reads equal to twice the number of fragments?

  #47 opened a year ago by alvanuffelen
  9

• Error with CCMetagen.py

  #43 opened 2 years ago by DrYoungOG
  3

• kma error 2

  #32 opened 3 years ago by vasudhajain29
  9

• Segmentation error in KMA

  #41 opened 2 years ago by taniagmangolini
  3

• New reference databases

  #39 opened 2 years ago by yashasdevasurmutt
  1

• Unable to construct database following your instruction

  #36 opened 2 years ago by liuchen92
  3

• Index out of range when using CCMetagen.py

  #35 opened 2 years ago by tamascogustavo
  2

• ValueError: 1327640 taxid not found

  #34 opened 3 years ago by taniagmangolini
  3

• Database download problem

  #33 opened 3 years ago by AMPByrne
  1

• parameters for low-biomass samples

  #31 opened 3 years ago by MjelleLab
  3

• ValueError: invalid literal for int() with base 10: 'NW_001849834.1

  #30 opened 3 years ago by MjelleLab
  3

• how to represent top most abundant species

  #26 opened 3 years ago by saras224
  2

• Issue installing libz-dev

  #27 opened 3 years ago by qfaber
  1

• CCMetagen_merge input suffix discrepancy

  #25 opened 3 years ago by mihkelvaher
  3

• rename_nt.py is not considering multi seq IDs in fasta headers

  #24 opened 3 years ago by mihkelvaher
  1

• Underestimation possibility of abundance while using db containing subsequences?

  #23 opened 3 years ago by mihkelvaher
  5

• Databases-related inquiry

  #22 opened 3 years ago by Ahmed-Shibl
  5

• Obtaining RPM, fragments, and proportion of mapper reads

  #21 opened 4 years ago by Tj-Idowu
  2

• Run out of memory

  #19 opened 4 years ago by SethCommichaux
  2

• CCMetagen.py: mysql error when setting up the taxonomy database

  #14 opened 4 years ago by walshaw
  5

• Machine specs for making a large custom database

  #20 opened 4 years ago by akramirez
  6

• Custom Database

  #18 opened 4 years ago by punnettsun
  3

• multiple lanes (paired end) for each sample

  #17 opened 4 years ago by molbio7
  1

• Abundance Calculation

  #16 opened 4 years ago by punnettsun
  4

• Classified/Unclassified Reads

  #15 opened 4 years ago by punnettsun
  2

• pandas error

  #10 opened 4 years ago by theo-allnutt-bioinformatics
  6

• suggestion: merge species but not files

  #12 opened 4 years ago by theo-allnutt-bioinformatics
  4

• CCMetagen_merge.py output columns meaning

  #13 opened 4 years ago by theo-allnutt-bioinformatics
  1

• Depth unit question

  #11 opened 4 years ago by theo-allnutt-bioinformatics
  2

• acc2taxid.map

  #9 opened 4 years ago by theo-allnutt-bioinformatics
  2