iGenVar - Call Deletions from long reads

[Irallia]

Call SVs: For larger structural variations, we want to combine the various known methods to call deletions.

• Distinguish between long and short reads in the input iGenVar - Call SVs in short reads  #17
  • Call Deletions via the CIGAR string
    • Call Deletions in long reads [FEATURE] Call Deletions in long reads via the CIGAR string #25
    • Call Deletions in short reads [FEATURE] Call SVs in short reads via the CIGAR string and SA tag #27
  • Call Deletion using split alignment [FEATURE] Extend deletion calling by using split alignment. #18
• Cluster junctions by hierarchical clustering [FEATURE] Cluster junctions by hierarchical clustering #54

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EDIT (30.03.2021): We have removed some of the requirements as we are outsourcing them:

• short read input iGenVar - Call SVs in short reads  #17