eldariont/svim

Issues

• svim2.0.0 err

  #70 opened a year ago by vegetableyu
  0

• Multi-sample processing

  #64 opened 2 years ago by YahGao
  1

• pos of interspersed duplication

  #66 opened 2 years ago by bakeronit
  1

• samtools error

  #71 opened 7 months ago by ajbarley
  0

• all.vcf did not contain BND and insertion sequences

  #69 opened a year ago by makise58
  0

• INV score not calculating

  #68 opened a year ago by avictorsen
  0

• SVIM 2.0.0 in conda

  #58 opened 3 years ago by Akazhiel
  3

• bioconda install

  #67 opened 2 years ago by Noczio
  0

• Error question. Please delete.

  #65 opened 2 years ago by leone93
  0

• population call with svim

  #48 opened 4 years ago by Chenglin20170390
  3

• Start position

  #63 opened 3 years ago by Akazhiel
  0

• [BUG] Unsorted positions on sequence

  #61 opened 3 years ago by Irallia
  2

• Fail to get the svim_evaluation.zip

  #62 opened 3 years ago by SQLiu-youyou
  0

• Problem with DUP naming. SVLEN is not present in INV calls.

  #60 opened 3 years ago by mldmort
  0

• Reference allele missing

  #56 opened 3 years ago by Akazhiel
  2

• Alignment pipeline error

  #39 opened 4 years ago by camilogarciabotero
  8

• Reads supporting BND events

  #57 opened 3 years ago by Akazhiel
  2

• how many calls should we expect?

  #59 opened 3 years ago by woodoo46
  5

• Reversed start and end of BND

  #54 opened 3 years ago by charliechen912ilovbash
  1

• Understanding the scoring?

  #26 opened 4 years ago by alelim-bio
  4

• Add output name options

  #55 opened 3 years ago by Akazhiel
  1

• Understand the output?

  #52 opened 3 years ago by wenbinmei
  1

• Confusion about output

  #53 opened 3 years ago by cgrootcrego
  2

• what is the recommended annotation tools after SV calling?

  #42 opened 3 years ago by charliechen912ilovbash
  2

• parameter settings for more support reads

  #51 opened 3 years ago by yekaizhou
  4

• Improved Documentation

  #49 opened 4 years ago by CharlesARoy
  2

• Low number of interspersed duplications?

  #50 opened 4 years ago by GuillaumeHolley
  1

• The genotype of the variants.vcf file were ./.

  #46 opened 4 years ago by Xuelei-Dai
  1

• merge the two lines translocation(BND) records into one line

  #47 opened 4 years ago by charliechen912ilovbash
  2

• SVIM tries to use deprecated Numpy feature

  #45 opened 4 years ago by InvisOn
  1

• svim alignment error

  #43 opened 4 years ago by lukaslee1127
  1

• using svim alignment to genotype, all the tandem duplications show missing value

  #44 opened 4 years ago by lx-4199
  1

• the recommended sequencing depth

  #41 opened 4 years ago by charliechen912ilovbash
  2

• Is SVIM suitable for detecting somatic SV?

  #40 opened 4 years ago by charliechen912ilovbash
  1

• Underflow on variant position?

  #38 opened 4 years ago by wdecoster
  5

• MemoryError

  #37 opened 4 years ago by Boer223
  3

• SV types in output VCF

  #28 opened 5 years ago by shimbalama
  3

• (Almost) no insertions

  #36 opened 4 years ago by LizzieMcDizzie
  5

• ERROR when using assembly-vs-assembly BAM as input

  #34 opened 5 years ago by biozzq
  3

• raw reads or corrected reads ?

  #35 opened 5 years ago by ptranvan
  1

• [Feature request] Expose CLI for customizing batch size

  #32 opened 5 years ago by SHuang-Broad
  1

• Check existence of bam index upfront

  #33 opened 5 years ago by SHuang-Broad
  2

• Phasing interpretation

  #31 opened 5 years ago by javibio-git
  4

• SVIM breaks with OSError: truncated file in Genotyping step

  #30 opened 5 years ago by caspargross
  2

• FORMAT 'CN' is not defined in the header

  #29 opened 5 years ago by zihhuafang
  3

• pysam error

  #27 opened 5 years ago by ndierckx
  8

• Wrong SVLEN values

  #24 opened 5 years ago by ricardovialle
  4

• complex events detection

  #25 opened 5 years ago by jiadong324
  3

• Suggestion: Add BEDPE as an optional output

  #23 opened 5 years ago by Dfupa
  4

• Q: is it possible to allow users choose between NGMLR Minimap2?

  #22 opened 5 years ago by SHuang-Broad
  4