hall-lab speedseq issues

hall-lab / speedseq

A flexible framework for rapid genome analysis and interpretation

MIT License

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issues

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Compile Errors: *** [Makefile:59: cnvnator] Error 1

#155 walidabualafia opened 10 months ago
0
Are CRAM files supported by SpeedSeq?

#154 sandrine-cmf opened 1 year ago
0
make :can not find -lCore -lRIO -lHist -lGraf -lGpad -lTree -lMathCore

#153 klelizi opened 1 year ago
0
error: cannot guess build type; you must specify one

#152 klelizi closed 1 year ago
0
configure: error: cannot guess build type; you must specify one

#151 klelizi closed 1 year ago
0
Update dependencies (submodules) so that the project builds on Linux ARM64

#150 martin-g opened 1 year ago
3
[Question] Is ARM64 supported ?

#149 gancho-ivanov opened 2 years ago
1
Speedseq is runnning infinitely

#148 vivekruhela opened 3 years ago
1
mismatched line lengths at line 3 within sequence

#147 vivekruhela opened 3 years ago
0
Bam file not generated using speedseq align

#146 kghimire09 opened 3 years ago
0
error: static assertion failed: comparison object must be invocable as const

#145 mariana19901990 opened 3 years ago
0
-M parameter for BWA MEM alignment

#144 aariani opened 3 years ago
0
Linker error when doing `make cnvnator`

#143 smichnowicz opened 3 years ago
0
is there a container?

#142 RichardCorbett opened 4 years ago
2
Read block operation failed with error

#141 YTLogos closed 4 years ago
1
speedseq var and sv only on genomic regions

#140 d-kk opened 4 years ago
0
Warning: --split_bam (-S) is deprecated

#139 Jia21 opened 4 years ago
0
problems about vcf files.

#138 xujinshengjsxu closed 4 years ago
0
Parallel link is dead

#137 taylorjtamu opened 5 years ago
1
Error -running speedseq SV - missing pair end parameters:mean stdev

#136 bioteksampath opened 5 years ago
0
compilation of freebayes module fails on Ubuntu 18.04

#135 pwaltman opened 5 years ago
2
one issues about speedseq sv

#134 zhangtongda closed 5 years ago
0
Speedseq SV failure: reference not found

#133 Ravillee opened 5 years ago
1
Can Speedseq be used on WGS generated from mice?

#132 btoe opened 6 years ago
0
container image

#131 lz100 opened 6 years ago
0
'make clean' deletes annotate_rd.y and cnvnator_wrapper.py, but they are not regenerated by 'make'

#130 ghost opened 6 years ago
0
tumor-normal workflow

#129 ramcn opened 6 years ago
0
QUAL score of '.'

#128 jgbaum opened 6 years ago
1
samtools compilation

#127 ccario83 opened 6 years ago
0
sambamba-sort: Cannot open or create file '/dev/stdin' : No such file or directory

#126 ccario83 opened 6 years ago
0
Add new exclude files

#125 apregier closed 6 years ago
0
parallel file is empty

#124 hanwenjuan opened 6 years ago
1
sambamba-view: unable to write to stream

#123 pmonnahan opened 6 years ago
4
error with vep_cache

#122 yaruchen opened 6 years ago
0
add -z to disable markdup in align

#121 lozybean opened 6 years ago
0
the -1.00 value of CN in SV.sv.vcf file

#120 LcQian closed 6 years ago
2
make cnvnator problem

#119 bk11-lab opened 6 years ago
0
samtools/libbam.a undefined reference

#118 firewater opened 6 years ago
0
SVTyper fails to genotype with hg38 alignments. --split_bam (-S) is deprecated

#117 dantaki opened 6 years ago
2
Resume functionality and chrom selection for CNVnator

#116 Gelblab opened 6 years ago
0
somtic results

#115 genowis123 opened 6 years ago
0
"Parameter required for id", resolved by manually inserting id fields in `-sr` arguments

#114 evanbiederstedt opened 7 years ago
1
sv.vcf output DEL and DUP annotations for almost identical genomics regions

#113 huanwang1985 opened 7 years ago
0
how many samples are needed for stable variant calling?

#112 ieiwk opened 7 years ago
0
Error on Speedseq SV

#111 silenus092 opened 7 years ago
0
wrong contig length in VCF header

#110 xtYao opened 7 years ago
0
Speedseq Sv on exome data

#109 silenus092 closed 7 years ago
2
Inconsistent behavior with lumpyexpress

#108 rajeha opened 7 years ago
0
Error: when install Variant Effect Predictor

#107 jianzuoyi closed 7 years ago
2
Make error: Error 2 on lumpy-sv

#106 kvshams opened 7 years ago
1