sequencing/NxTrim

Issues

• Parallel / multiple threads [feature request]

  #58 opened 5 years ago by mason-lab
  0

• Output fastq file becomes corrupt

  #57 opened 6 years ago by pinetree1
  3

• Mate pair SamplePrep V2

  #56 opened 6 years ago by kokyriakidis
  4

• Introduce -v flag for verbose output for runtime use

  #45 opened 6 years ago by mmokrejs
  0

• Add commandline flag to disable gzip compression

  #41 opened 6 years ago by mmokrejs
  0

• Shutdown a false WARNING or improve the message/code

  #39 opened 7 years ago by mmokrejs
  6

• Use external CSV file with linker positions

  #46 opened 7 years ago by mmokrejs
  0

• Output matched linkers into a CSV file

  #44 opened 7 years ago by mmokrejs
  0

• Does it detect Nextera XT DNA adapter as well?

  #53 opened 7 years ago by stemangiola
  1

• ERROR: the --preserve_mp and --justmp flags are incompatible [question]

  #50 opened 7 years ago by sjackman
  12

• Read interleaved reads [feature request]

  #48 opened 7 years ago by sjackman
  3

• Selecting which types of reads [feature request]

  #49 opened 7 years ago by sjackman
  0

• switch to Smith-Waterman for adapter matching

  #37 opened 8 years ago by jaredo
  46

• Make nxtrim resistant to junk polyG/C stretches from NextSeq device reads

  #42 opened 8 years ago by mmokrejs
  3

• FASTQ format is invalid

  #40 opened 8 years ago by mmokrejs
  15

• nxtrim does not filter reads with multiple Nextera linkers

  #33 opened 8 years ago by mmokrejs
  18

• nxtrim does not remove Illumina adapters

  #34 opened 8 years ago by mmokrejs
  3

• nxtrim does not remove Illumina adapters when --rf is used

  #32 opened 8 years ago by mmokrejs
  6

• Program crash with "Assertion `dna.size()==qual.size()' failed."

  #30 opened 8 years ago by aersoares81
  5

• can't compile using ubuntu 16.10

  #29 opened 8 years ago by grthb
  2

• Doubt with --justmp

  #28 opened 8 years ago by edu3716
  3

• Any experience with ALLPATHS-LG assembler ?

  #27 opened 8 years ago by ptranvan
  1

• nxtrim: command not found

  #26 opened 8 years ago by robalba1
  3

• Other adaptor clipping after nxtrim ?

  #24 opened 8 years ago by ptranvan
  1

• How to pipe the outputs of trimming onto Galaxy server BWA?

  #25 opened 8 years ago by odoland
  5

• --norc to let output file keep the RF orientation as input file?

  #23 opened 9 years ago by wangyugui
  1

• specify mp/unknown only with `--stdout`

  #20 opened 9 years ago by jaredo
  9

• Insert size estimated from alignment for "mp" is short

  #21 opened 9 years ago by simoncchu
  5

• output fastq file(without gzip) when process a fastq.gz file

  #18 opened 9 years ago by wangyugui
  13

• remove `--justmp` requirement from `--stdout`

  #19 opened 9 years ago by jaredo
  1

• NxTrim-0.4.0 Segmentation fault (core dumped)

  #17 opened 9 years ago by wangyugui
  4

• Insert size distribution

  #9 opened 9 years ago by wyim-pgl
  1

• Are only the "mp" reads reverse complemented by default? Or all reads?

  #16 opened 9 years ago by jvollme
  2

• summary is misreported when using --stdout

  #15 opened 9 years ago by jaredo
  0

• Active development?

  #14 opened 9 years ago by sklages
  4

• ABySS

  #13 opened 9 years ago by sklages
  2

• differing lengths

  #12 opened 9 years ago by jvollme
  11

• PE library too large when reads have different length

  #11 opened 10 years ago by jgarthur
  3

• Having trouble running "make" command

  #10 opened 10 years ago by tarunaaggarwal
  4

• Total counts do not sum to 100 %

  #8 opened 10 years ago by biomonika
  2

• Get reads in separate files

  #7 opened 10 years ago by CarolineOhrman
  2

• Fatal error in make

  #6 opened 10 years ago by CarolineOhrman
  2

• githash.h: No such file or directory

  #4 opened 10 years ago by biomonika
  1

• Please tag your releases

  #2 opened 10 years ago by mscook
  1

• Names of example files

  #1 opened 10 years ago by druvus
  1