0xTCG/aldy

Issues

• HapB3 alternate name

  #79 opened 6 months ago by aroon-color
  0

• Sequencing profile for Nanopore

  #78 opened 6 months ago by NaphatCode
  0

• Discrepancies between Aldy results from BAM vs VCF files (hg19 reference genome)

  #74 opened 8 months ago by paraveeown
  3

• Running Aldy on ONT data for CYP2D6 genotyping never finishes

  #73 opened 7 months ago by Tintest
  2

• Genotyping error using long read data

  #70 opened 7 months ago by sumudu-rangika
  2

• Aldy test error

  #69 opened a year ago by TuBieJun
  5

• Aldy can not create profile for hg38

  #75 opened 7 months ago by AlirezaTafazzoli
  1

• Issue about indels’ coverages in targeted sequencing data

  #71 opened 9 months ago by paraveeown
  1

• Question about low coverage sequencing samples

  #67 opened 9 months ago by anh151
  3

• ALDY's detection of insertion and deletion variants

  #61 opened a year ago by yscindyliu
  3

• Incorrect label for CYP2E1*7.005?

  #62 opened a year ago by ldgauthier
  3

• Changelog last updated for v4.2

  #68 opened a year ago by aroon-color
  1

• Failed pytest after installation

  #55 opened a year ago by pbrennan-mvz
  2

• cn neutral region option does not work properly

  #59 opened a year ago by seokho92
  1

• FEATURE: Allow processing of files with multiple samples

  #57 opened a year ago by yousef337
  2

• Issues calling long read whole genome sequencing

  #63 opened a year ago by anh151
  2

• ERROR: gene= cyp2d6, file= S000029_S4842Nr1.bam KeyError('hg38')

  #47 opened a year ago by erichards52
  5

• ERROR: gene= ifnl3, profile= wgs, file= 1_HB00001.cram The average coverage of the sample is too low (1.3).

  #49 opened a year ago by SammyTTA
  1

• Aldy profile Creation

  #60 opened a year ago by sahalpaladan
  1

• Error: The average coverage of the sample is too low

  #66 opened a year ago by rrdavis77
  1

• Command argument -n --cn-neutral-region not updating neutral region

  #65 opened a year ago by chrisEisenhartBitscopic
  1

• Using Aldy with nanopore data - error for some genes

  #56 opened a year ago by KoenDeserranno
  2

• AttributeError("'NoneType' object has no attribute 'startswith'") for gene= UGT1A1

  #64 opened a year ago by J-Bradlee
  1

• IndexError: string index out of range for Nanopore data

  #52 opened 2 years ago by kiflu-23
  3

• Enquiry

  #51 opened 2 years ago by MYMBECKY
  1

• Aldy v4.4 incorrectly calls GeT-RM sample NA21781 that was correctly called by Aldy v2.2.6

  #50 opened 2 years ago by VasilisFlouris
  1

• CYP3A4 and rs2740574 handling

  #46 opened 2 years ago by aroon-color
  4

• ERROR: truncated file cannot be accessed

  #48 opened 2 years ago by SammyTTA
  1

• aldy test failed

  #42 opened 2 years ago by CryALotz
  4

• Genotype Interpretation and Possible bugs

  #45 opened 2 years ago by anh151
  6

• Docker container

  #29 opened 2 years ago by marchoeppner
  1

• Update Aldy gene databases to latest PharmVar Version

  #30 opened 2 years ago by InvictusX10A
  5

• Aldy test error

  #39 opened 2 years ago by deb0612
  1

• Some gene cannot be accessed

  #38 opened 2 years ago by deb0612
  2

• output file missing coverage info

  #37 opened 2 years ago by PWSmit
  0

• phase error

  #36 opened 2 years ago by Keshavsrikar
  1

• Aldy does not recognize [23936, A>G, rs7088784]

  #33 opened 2 years ago by lonny1999
  6

• Copy number neutral region

  #35 opened 2 years ago by sumudu-rangika
  1

• Multiple BAM files?

  #32 opened 2 years ago by JARM89
  2

• Multiple Bam Files Into a Single Output File?

  #28 opened 2 years ago by joseph-yclam
  1

• G6PD genotype

  #23 opened 2 years ago by jucosie
  1

• Providing --phase parameter for Aldy

  #24 opened 3 years ago by AlirezaTafazzoli
  5

• Import Error for Conftest

  #27 opened 3 years ago by joseph-yclam
  0

• Add CES1 genes

  #22 opened 3 years ago by dridk
  2

• interpreting aldy outputs

  #25 opened 3 years ago by mgonzalezporta
  1

• multiple-warn-level argument for genotype isn't being converted to int

  #21 opened 4 years ago by RyanRatcliff
  1

• ERROR: gene= CYP1A2

  #20 opened 4 years ago by deb0612
  1

• Alignment to PGx regions only

  #17 opened 4 years ago by kokyriakidis
  3

• Aldy test Assertion Error for the new year :)

  #18 opened 4 years ago by rrdavis77
  1

• chr tag in bam header gives error when creating profile

  #16 opened 4 years ago by roman-tremmel
  1