nygenome lancet issues - Githubissues

nygenome / lancet

Microassembly based somatic variant caller for NGS data

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

#60 nevinwu closed 8 months ago
1
massive number of SNP/SNV/CNV count difference between lancet 1.0.7 v/s 1.1.0

#59 complexgenome closed 11 months ago
6
providing region doesn't work - output for whole-genome

#58 complexgenome closed 1 year ago
2
Lancet use cases

#57 pdimens closed 1 year ago
2
CRAM support

#56 Rapsssito closed 1 year ago
1
feat: Create Dockerfile

#55 Rapsssito closed 2 years ago
1
Update to latest versions of bamtools and htslib

#54 omicsnut closed 2 years ago
0
WES bed file input

#53 jennyp76 closed 2 years ago
1
Lancet could not open tumor BAM file

#52 AldhairMedico closed 2 years ago
4
Problem with BAM chromosome labels

#51 AldhairMedico closed 3 years ago
2
Skipped windows

#50 GeorgetteTanner closed 3 years ago
2
somatic variants definition

#49 wangjiawen2013 closed 3 years ago
5
Detailed tutorials

#48 wangjiawen2013 closed 3 years ago
1
built error: ld returned 1 exit status

#47 axiba053 closed 4 years ago
7
ONT

#46 shimbalama closed 4 years ago
1
not installing on macOS

#45 jkobject closed 4 years ago
6
MNP representation in vcf output

#44 migbro closed 4 years ago
3
Run lancet on Whole exome

#43 medcelerate closed 4 years ago
24
failed with exit code 139 when run lancet

#42 rxw125 closed 4 years ago
8
config.txt showing up in pwd

#41 ryanrichholt closed 5 years ago
4
Input bam

#40 ggoodstudydaydayup closed 5 years ago
5
Lancet failed to build with gcc 5.4.0 and ubuntu 16.04

#39 tahuh closed 5 years ago
3
Error: not able to jump successfully to the region's left boundary in tumor

#38 toedling closed 5 years ago
4
v 1.0.7 not compiling on Mac

#37 proukakis closed 5 years ago
2
util.cc:423: void parseMD(std::string&, std::map<int, int>&, int, std::string&, int): Assertion `rpos <= qual.length()' failed.

#36 Elizabeth237 closed 5 years ago
8
Lancet won't use cmake3, although it is required

#35 jbsysadmin closed 5 years ago
4
Germline variants from lancet

#34 gilhornung closed 6 years ago
1
Question regarding --XA-tag-filter option in lancet v1.0.7

#33 gilhornung closed 6 years ago
1
util.cc:423: void parseMD(std::string&, std::map<int, int>&, int, std::string&, int): Assertion `rpos <= qual.length()' failed.

#32 gilhornung closed 5 years ago
7
lancet 1.0.7 does not build (Centos 7.4.1708, gcc 4.8.5)

#31 jbsysadmin closed 5 years ago
12
lancet does not build (Centos 6.9, gcc gcc-4.9.3)

#30 jbsysadmin closed 5 years ago
2
Lancet stuck on WGS interval

#29 ahwanpandey closed 6 years ago
1
Lancet fails on IonTorrent targeted single-end data

#28 HLAmolec closed 6 years ago
1
format of Multi-allelic SNPs in VCF

#27 ahwanpandey closed 6 years ago
3
Memory and Runtime

#26 ahwanpandey closed 6 years ago
5
Error when using --bed argument

#25 ysbioinfo closed 6 years ago
3
Is bed file required for WES data?

#24 ysbioinfo closed 6 years ago
4
lancet does not build (Centos 6.9, gcc gcc-4.9.3)

#23 jbsysadmin closed 6 years ago
16
std::bad_alloc error when calling variant using lancet

#22 Yiming-Shen closed 6 years ago
7
lancet missed a large region with many variants

#21 gilhornung closed 6 years ago
2
lancet reports a di-nucleotide variant as two single variants

#20 gilhornung closed 6 years ago
3
lancet fails to detect an obvious deletion, which it detected in a previous run

#19 gilhornung closed 6 years ago
2
compile errors with v1.0.6

#18 RichardCorbett closed 6 years ago
3
Calling from secondary alignments

#17 gilhornung closed 6 years ago
7
Detection of variants is critically dependent on "genomic region" input

#16 gilhornung closed 6 years ago
6
Install fails.

#15 tstricker closed 6 years ago
5
problem with MAKE

#14 haoziyeung closed 6 years ago
2
Makefile Issue

#13 adbhatt closed 6 years ago
2
lancet missing RB1 mutation

#12 crazyhottommy closed 6 years ago
2
use lancet for specific indels

#11 crazyhottommy closed 6 years ago
7