smangul1/rop

Issues

• Enable circrna and bacteria steps

  #135 opened 2 years ago by kahsieh
  10

• Mouse rDNA profiling fails: samtools sort: failed to read header from "-"

  #145 opened 2 years ago by borshago
  2

• BWAindex for human and mouse no longer available on google docs?

  #148 opened 2 years ago by maaskola
  1

• container

  #140 opened 2 years ago by smangul1
  0

• syntax error

  #147 opened 3 years ago by rgarcia27
  6

• Installation aborts when downloading MetaPhlAn2

  #146 opened 3 years ago by julianeweller
  2

• Distribute ROP as a package

  #132 opened 5 years ago by epruesse
  5

• install.sh script not working

  #144 opened 5 years ago by BeckfordJay
  3

• metaphlan outputs always 2 reads

  #143 opened 6 years ago by InesdeSantiago
  5

• update the bacteria db

  #142 opened 6 years ago by fadista
  2

• 7723 Bus Error

  #141 opened 6 years ago by Mkang1204
  4

• rop error message

  #139 opened 6 years ago by fadista
  10

• Use bioconda for Metaphlan2

  #136 opened 6 years ago by kahsieh
  2

• Conda environment file with necessary packages

  #138 opened 6 years ago by jaime11
  5

• Enable ROP-mouse

  #133 opened 6 years ago by igordot
  5

• replace install.sh with environment.yaml

  #131 opened 6 years ago by epruesse
  2

• remove pyc and __pycache__ from git

  #130 opened 6 years ago by epruesse
  1

• Update getDB.py and install.sh

  #128 opened 6 years ago by Toseph
  1

• make different option work for constant and variable real length

  #127 opened 7 years ago by smangul1
  1

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

  #123 opened 7 years ago by sizunj
  5

• Make python function to decect low complexity reads as done in SEQLEAN

  #106 opened 7 years ago by smangul1
  0

• make pip installation

  #105 opened 7 years ago by smangul1
  0

• make this faster : **We have used in-house script to filter out low quality reads"

  #107 opened 7 years ago by smangul1
  0

• gprofile error

  #110 opened 7 years ago by dimitras
  5

• bug: incorrect files for running gprofile

  #111 opened 7 years ago by brainfood
  2

• Gtex improvement

  #124 opened 7 years ago by smangul1
  0

• release 1.0.8

  #126 opened 7 years ago by smangul1
  1

• Where is Bless installed?

  #122 opened 7 years ago by parthingle
  2

• New bug in rop-imrep.sh ...

  #121 opened 7 years ago by PoslavskySV
  2

• Exception when running rop-imrep.sh

  #119 opened 7 years ago by PoslavskySV
  3

• SAMTOOLS command not found

  #120 opened 7 years ago by PoslavskySV
  1

• rop and paired reads input files

  #115 opened 7 years ago by meganfrederick
  3

• Exception in rop.py

  #118 opened 7 years ago by PoslavskySV
  4

• Megan Frederick

  #114 opened 8 years ago by meganfrederick
  2

• can not download tutorial RNA-seq data

  #113 opened 8 years ago by meganfrederick
  4

• Does rprofile run with mouse data?

  #112 opened 8 years ago by dimitras
  1

• bug

  #109 opened 8 years ago by smangul1
  2

• Issue installing

  #104 opened 8 years ago by paulagodoy
  0

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

  #103 opened 8 years ago by brianpenghe
  3

• Does ROP also work on mouse data?

  #102 opened 8 years ago by brianpenghe
  2

• bam to fastq

  #96 opened 8 years ago by guerauF
  5

• if you run out of reads at any step - finish!!!!!!!!

  #95 opened 8 years ago by smangul1
  0

• the link to the example with the unmapped reads from Gdrive doesn't work! Fix it

  #94 opened 8 years ago by smangul1
  0

• --fastqGz doesn't work

  #90 opened 8 years ago by smangul1
  1

• --jobArray and skipPreliminary doesn't work

  #87 opened 8 years ago by smangul1
  3

• CIRI died because different read lengths

  #100 opened 8 years ago by wdecoster
  6

• wiki. output of igblast missing a column !

  #97 opened 8 years ago by smangul1
  0

• antibody diversity and alphaGeneral.py

  #99 opened 8 years ago by guerauF
  4

• ROP deletes unmapped reads

  #101 opened 8 years ago by kahsieh
  0

• reads do not map to IGK rop v1.0.1/2

  #88 opened 8 years ago by guerauF
  3