ucagenomix/sicelore

Issues

• AddBamReadSequenceTag step stop processing with extremely large fastq file

  #80 opened 2 months ago by imemorizedpi
  0

• how to make SCORE method work?

  #49 opened 2 years ago by icanccwhite
  1

• error in illluminaparser

  #78 opened a year ago by yuanwsy
  0

• strange output in step5 umifinder

  #79 opened 7 months ago by yuanwsy
  1

• SNPMatrix - "nothing has been detected, check your input parameters ..."

  #57 opened 2 years ago by ozakikokoro
  2

• Error in loading IlluminaParser.jar file

  #77 opened a year ago by NPAPINENI
  0

• Error in Quality tagging step

  #76 opened a year ago by Prakrithi-P
  0

• Can not found UMI

  #38 opened 3 years ago by RyanYip-Kat
  4

• Number of single cell to detect

  #55 opened 2 years ago by amitblum
  1

• Sicelore-2.0.jar IsoformMatrix runs into NoSuchElementException error

  #51 opened 2 years ago by areebapatel
  3

• how to deal with multi mapped reads

  #71 opened 2 years ago by defendant602
  1

• AddBamReadSequenceTag Error

  #70 opened 2 years ago by loganylchen
  3

• how to modify, adapt to celescope

  #37 opened 2 years ago by RyanYip-Kat
  0

• NanoporeBC_UMI_finder-1.0.jar speed/5'-libraries

  #64 opened 2 years ago by EduardoGCCM
  12

• NanoporeBC_UMI_finder-1.0.jar gets stuck

  #69 opened 2 years ago by m-kuoch
  2

• Error when running IlluminaParser.jar

  #72 opened 2 years ago by RCHENLAB
  1

• Sicelor without matched Illumina data

  #74 opened 2 years ago by mdeloger
  1

• IsoformMatrix output 'undef'

  #75 opened 2 years ago by OdmaaBayar
  2

• Error while running NanoporeBC_UMI_finder-1.0.jar

  #73 opened 2 years ago by davidebolo1993
  1

• external bam file of Novel transcripts isoforms detection

  #50 opened 3 years ago by icanccwhite
  3

• NanoporeBC_UMI_finder-1.0.jar runs very long

  #66 opened 2 years ago by erosix
  5

• NanoporeBC_UMI_finder-1.0: Parsing failed

  #68 opened 2 years ago by erosix
  2

• how to get junctions.bed

  #40 opened 2 years ago by markme123
  1

• IsoformMatrix - Include counts in genematrix.txt that lack UMI

  #52 opened 2 years ago by bumproo
  1

• Running nanoporebc_umi_finder-1.0.jar gets out.log. Is this normal

  #43 opened 2 years ago by markme123
  1

• Sicelore-2.0.jar ComputeConsensus Produces a large number of IO errors

  #48 opened 2 years ago by markme123
  1

• IsoformMatrix error for refFlatParser

  #67 opened 2 years ago by chenghuihui2018
  4

• Error when running IlluminaParser.jar

  #65 opened 3 years ago by yuchen345
  2

• Error on NanoporeReadScanner.java

  #62 opened 3 years ago by ghazaleb75
  1

• ERROR: Unrecognized option: TAG while running Sicelore-2.0.jar AddGeneNameTag

  #63 opened 3 years ago by rakszewska
  1

• How to build Sicelore-2.0.jar? pom.xml shows version as 1.0-SNAPSHOT

  #58 opened 3 years ago by mxvanzant
  3

• Log4j issues

  #59 opened 3 years ago by bethrusnak
  2

• why Jar/NanoporeBC_UMI_finder-1.0.jar -t set 15 actual run was only 1 CPU

  #41 opened 3 years ago by markme123
  0

• compute consensus sequence

  #36 opened 3 years ago by RyanYip-Kat
  2

• Invalid consensus FASTQ file following deduplication

  #47 opened 3 years ago by jbeaulaurier
  5

• null sequence and quality in consensus sequence

  #39 opened 3 years ago by defendant602
  4

• UMI !=12bp,can work

  #42 opened 3 years ago by RyanYip-Kat
  1

• *.molinfos.txt output file

  #54 opened 3 years ago by amitblum
  2

• 1st step: illuminaparser run but wihtout output file

  #56 opened 3 years ago by lightfromdark
  1

• the problem of AddBamReadSequenceTag

  #53 opened 3 years ago by dongspy
  1

• Sicelore-2.0.jar ComputeConsensus must split chr ?

  #44 opened 3 years ago by markme123
  2

• Sicelore-2.0.jar ComputeConsensus exception in LongreadParser

  #45 opened 3 years ago by jbeaulaurier
  1

• AddBamReadSequenceTag

  #46 opened 3 years ago by parsboy66
  0

• Result of NanoporeReadScanner.jar

  #34 opened 3 years ago by alicecsq
  2

• Reproducibility of NanoporeBC_UMI_finder

  #35 opened 3 years ago by kwells4
  2

• Ignoring SAM validation error when runing IlluminaParser-1.0.jar

  #32 opened 3 years ago by yangao07
  6

• java.lang.OutOfMemoryError when running NanoporeBC_UMI_finder-1.0.jar

  #30 opened 3 years ago by yangao07
  7

• whether longer barcode can be used for umiBCLength

  #29 opened 3 years ago by liruixue0728
  1

• cannot install the correct poa for ComputeConsensus

  #33 opened 3 years ago by alicecsq
  3

• Errors when using IlluminaParser.jar

  #31 opened 3 years ago by alicecsq
  2