yyoshiaki/VIRTUS2

Issues

• PermanentFail in wget virus

  #42 opened 5 months ago by Samantao93
  2

• system disk and tmp directory

  #41 opened 7 months ago by antoine4ucsd
  2

• poor support for Singularity

  #35 opened a year ago by gailrosen
  7

• Wrapper problem/maybe fix?

  #26 opened a year ago by KevinMaroney
  5

• Unable to open docker instance with Singularity

  #40 opened 7 months ago by KevinMaroney
  1

• Memory Issue

  #39 opened 8 months ago by KevinMaroney
  1

• Extracted reads dont match on blast (nr)

  #38 opened 7 months ago by sirrgang
  1

• Strange samview fatal error in some samples

  #37 opened 7 months ago by xapple
  3

• Thousands of weird warnings in the output of VIRTUS2

  #36 opened a year ago by xapple
  1

• Question about VIRTUS2 Output

  #23 opened 2 years ago by ppark123
  5

• About summary.csv

  #31 opened a year ago by nmotisk
  2

• question about singularity issue

  #34 opened a year ago by gailrosen
  1

• Questions regarding VIRTUS2 script for transcript alignment to viral reference genome + calculating num_reads

  #32 opened a year ago by ppark123
  2

• Changing the viral database

  #33 opened a year ago by xapple
  2

• Meaning of output data

  #30 opened a year ago by nmotisk
  0

• about nthreads

  #29 opened a year ago by nmotisk
  1

• Individual viral gene output?

  #27 opened a year ago by KevinMaroney
  1

• Running this on an hpc with no docker installed

  #25 opened a year ago by KevinMaroney
  5

• Query is marked as paired, but its mate does not occur next to it in your BAM file. Skipping.

  #24 opened a year ago by ppark123
  1

• Question about indexing genomes while using singularity

  #21 opened 2 years ago by egnst
  4

• AttributeError: '_LocIndexer' object has no attribute 'columns'

  #22 opened 2 years ago by patrick-douglas
  6

• About errors that occur with docker

  #20 opened 2 years ago by inagaki-s
  2

• How can I run createindex using a local custom local virus database?

  #19 opened 2 years ago by yyoshiaki
  5

• Warnings: may be incompatible

  #17 opened 2 years ago by patrick-douglas
  3

• Gene counts

  #18 opened 2 years ago by lukewgarratt
  2

• Regarding the fact that what used to be supported by the system now produces errors

  #16 opened 2 years ago by inagaki-s
  1

• Designation of output directory

  #15 opened 2 years ago by inagaki-s
  0

• Adding STAR options for run

  #8 opened 2 years ago by cd-scientist
  1

• --limitBAMsortRAM

  #12 opened 2 years ago by a-zoon
  5

• IGV

  #13 opened 2 years ago by km-2021
  1

• createindex

  #14 opened 2 years ago by inagaki-s
  2

• Incompatibility between cwltools and singularity for virtus2

  #11 opened 2 years ago by bioinfo-fiend
  11

• Update cwltool version to match singularity/3.10.3

  #10 opened 2 years ago by qiyubio
  7

• VIRTUS2 for scRNA

  #9 opened 2 years ago by andreanuzzo
  6

• Absolute path

  #7 opened 3 years ago by km-2021
  4

• No module named 'seaborn.external.six'

  #5 opened 3 years ago by km-2021
  6

• seaborn 0.12.0a deprecate seaborn.external.six

  #3 opened 3 years ago by yyoshiaki
  2

• bam_filter_polyx image dupulication

  #4 opened 3 years ago by yyoshiaki
  1

• How to confirm the mapped read sequence?

  #2 opened 3 years ago by km-2021
  1

• Errors occur when only few viruses were detected. (VIRTUS_wrapper.py)

  #1 opened 3 years ago by yyoshiaki
  1