Issues

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

  hall-lab/speedseq#155 · Filter by author walidabualafia opened on Oct 12, 2023

• Are CRAM files supported by SpeedSeq?

  hall-lab/speedseq#154 · Filter by author sandrine-cmf opened on May 26, 2023

• make :can not find -lCore -lRIO -lHist -lGraf -lGpad -lTree -lMathCore

  hall-lab/speedseq#153 · Filter by author klelizi opened on Dec 8, 2022

• [Question] Is ARM64 supported ?

  hall-lab/speedseq#149 · Filter by author gancho-ivanov opened on Jul 19, 2022
  1

• Speedseq is runnning infinitely

  hall-lab/speedseq#148 · Filter by author vivekruhela opened on Jun 5, 2021
  1

• mismatched line lengths at line 3 within sequence

  hall-lab/speedseq#147 · Filter by author vivekruhela opened on Jun 3, 2021

• Bam file not generated using speedseq align

  hall-lab/speedseq#146 · Filter by author kghimire09 opened on Apr 30, 2021

• error: static assertion failed: comparison object must be invocable as const

  hall-lab/speedseq#145 · Filter by author villab04 opened on Feb 10, 2021

• -M parameter for BWA MEM alignment

  hall-lab/speedseq#144 · Filter by author aariani opened on Jan 4, 2021

• Linker error when doing make cnvnator

  hall-lab/speedseq#143 · Filter by author smichnowicz opened on Oct 7, 2020

• is there a container?

  hall-lab/speedseq#142 · Filter by author RichardCorbett opened on Jun 15, 2020
  3

• speedseq var and sv only on genomic regions

  hall-lab/speedseq#140 · Filter by author d-kk opened on Jan 26, 2020

• Warning: --split_bam (-S) is deprecated

  hall-lab/speedseq#139 · Filter by author Jia21 opened on Nov 15, 2019

• Parallel link is dead

  hall-lab/speedseq#137 · Filter by author taylorjtamu opened on Jul 18, 2019
  2

• Error -running speedseq SV - missing pair end parameters:mean stdev

  hall-lab/speedseq#136 · Filter by author bioteksampath opened on May 7, 2019

• compilation of freebayes module fails on Ubuntu 18.04

  hall-lab/speedseq#135 · Filter by author pwaltman opened on Jan 22, 2019
  2

• Speedseq SV failure: reference not found

  hall-lab/speedseq#133 · Filter by author Ravillee opened on Oct 21, 2018
  1

• Can Speedseq be used on WGS generated from mice?

  hall-lab/speedseq#132 · Filter by author btoe opened on Aug 24, 2018

• container image

  hall-lab/speedseq#131 · Filter by author lz100 opened on Aug 5, 2018

• 'make clean' deletes annotate_rd.y and cnvnator_wrapper.py, but they are not regenerated by 'make'

  hall-lab/speedseq#130 · Filter by author ghost opened on Jul 13, 2018

• tumor-normal workflow

  hall-lab/speedseq#129 · Filter by author ramcn opened on Jun 24, 2018

• QUAL score of '.'

  hall-lab/speedseq#128 · Filter by author jgbaum opened on Jun 19, 2018
  1

• samtools compilation

  hall-lab/speedseq#127 · Filter by author ccario83 opened on Apr 26, 2018

• sambamba-sort: Cannot open or create file '/dev/stdin' : No such file or directory

  hall-lab/speedseq#126 · Filter by author ccario83 opened on Apr 26, 2018

• parallel file is empty

  hall-lab/speedseq#124 · Filter by author hanwenjuan opened on Jan 8, 2018
  1