nygenome/lancet

Issues

• Using lancet on tumor-only samples (without matched normal)

  #60 opened a year ago by nevinwu
  1

• massive number of SNP/SNV/CNV count difference between lancet 1.0.7 v/s 1.1.0

  #59 opened a year ago by complexgenome
  6

• CRAM support

  #56 opened a year ago by Rapsssito
  1

• providing region doesn't work - output for whole-genome

  #58 opened a year ago by complexgenome
  2

• Lancet use cases

  #57 opened a year ago by pdimens
  2

• built error: ld returned 1 exit status

  #47 opened 4 years ago by axiba053
  7

• WES bed file input

  #53 opened 3 years ago by jennyp76
  1

• Lancet could not open tumor BAM file

  #52 opened 3 years ago by AldhairMedico
  4

• Problem with BAM chromosome labels

  #51 opened 3 years ago by AldhairMedico
  2

• config.txt showing up in pwd

  #41 opened 6 years ago by ryanrichholt
  4

• Skipped windows

  #50 opened 4 years ago by GeorgetteTanner
  2

• somatic variants definition

  #49 opened 4 years ago by wangjiawen2013
  5

• Detailed tutorials

  #48 opened 4 years ago by wangjiawen2013
  1

• Input bam

  #40 opened 6 years ago by ggoodstudydaydayup
  5

• Run lancet on Whole exome

  #43 opened 5 years ago by medcelerate
  24

• Memory and Runtime

  #26 opened 6 years ago by ahwanpandey
  5

• ONT

  #46 opened 5 years ago by shimbalama
  1

• not installing on macOS

  #45 opened 5 years ago by jkobject
  6

• MNP representation in vcf output

  #44 opened 5 years ago by migbro
  3

• failed with exit code 139 when run lancet

  #42 opened 5 years ago by rxw125
  8

• lancet 1.0.7 does not build (Centos 7.4.1708, gcc 4.8.5)

  #31 opened 6 years ago by jbsysadmin
  12

• Error: not able to jump successfully to the region's left boundary in tumor

  #38 opened 6 years ago by toedling
  4

• Lancet failed to build with gcc 5.4.0 and ubuntu 16.04

  #39 opened 6 years ago by tahuh
  3

• v 1.0.7 not compiling on Mac

  #37 opened 6 years ago by proukakis
  2

• util.cc:423: void parseMD(std::string&, std::map<int, int>&, int, std::string&, int): Assertion `rpos <= qual.length()' failed.

  #36 opened 6 years ago by Elizabeth237
  8

• Lancet won't use cmake3, although it is required

  #35 opened 6 years ago by jbsysadmin
  4

• lancet does not build (Centos 6.9, gcc gcc-4.9.3)

  #30 opened 6 years ago by jbsysadmin
  2

• util.cc:423: void parseMD(std::string&, std::map<int, int>&, int, std::string&, int): Assertion `rpos <= qual.length()' failed.

  #32 opened 6 years ago by gilhornung
  7

• Germline variants from lancet

  #34 opened 6 years ago by gilhornung
  1

• Question regarding --XA-tag-filter option in lancet v1.0.7

  #33 opened 6 years ago by gilhornung
  1

• Lancet fails on IonTorrent targeted single-end data

  #28 opened 6 years ago by HLAmolec
  1

• lancet does not build (Centos 6.9, gcc gcc-4.9.3)

  #23 opened 6 years ago by jbsysadmin
  16

• Lancet stuck on WGS interval

  #29 opened 6 years ago by ahwanpandey
  1

• format of Multi-allelic SNPs in VCF

  #27 opened 6 years ago by ahwanpandey
  3

• Calling from secondary alignments

  #17 opened 7 years ago by gilhornung
  7

• lancet reports a di-nucleotide variant as two single variants

  #20 opened 7 years ago by gilhornung
  3

• Error when using --bed argument

  #25 opened 6 years ago by ysbioinfo
  3

• Is bed file required for WES data?

  #24 opened 6 years ago by ysbioinfo
  4

• std::bad_alloc error when calling variant using lancet

  #22 opened 6 years ago by Yiming-Shen
  7

• lancet missed a large region with many variants

  #21 opened 7 years ago by gilhornung
  2

• lancet fails to detect an obvious deletion, which it detected in a previous run

  #19 opened 7 years ago by gilhornung
  2

• compile errors with v1.0.6

  #18 opened 7 years ago by RichardCorbett
  3

• Detection of variants is critically dependent on "genomic region" input

  #16 opened 7 years ago by gilhornung
  6

• Install fails.

  #15 opened 7 years ago by tstricker
  5

• use lancet for specific indels

  #11 opened 7 years ago by crazyhottommy
  7

• Makefile Issue

  #13 opened 7 years ago by adbhatt
  2

• problem with MAKE

  #14 opened 7 years ago by haoziyeung
  2

• lancet missing RB1 mutation

  #12 opened 7 years ago by crazyhottommy
  2

• Segmentation fault: 11

  #10 opened 7 years ago by proukakis
  3

• Build fails

  #9 opened 7 years ago by subject-am
  6