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NCGG-MGC / IMSindel

IMSindel: An accurate intermediate-size indel detection tool incorporating de novo assembly and gapped global-local alignment with split read analysis
https://www.nature.com/articles/s41598-018-23978-z
MIT License
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what does clip_sttpos mean? #2

Closed zhangjianruwang closed 6 years ago

zhangjianruwang commented 6 years ago

Thank you for your reply, I have got the output of imsindel as following lines.

indel_type call_type chr sttpos endpos indel_length indel_str #indel_depth #ttl_depth details(indelcall_indeltype_depth) clip_sttpos depth(>=10) INS Hete chr19 261528 261528 1 A 5 13 INS_SID_5_261528 261528 High DEL Homo chr19 348405 348405 1 A 8 10 DEL_SID_8_348404 348404 High INS Homo chr19 349641 349641 1 C 16 18 INS_SID_16_349641 349641 High

I do not understand the clip_sttpos. What does it mean? clipping-start position? What is the difference between clip_sttpos and sttpos? it seems that clip_sttpos+1=sttpos.

zhangjianruwang commented 6 years ago

And what is the cleavage between heter and homo? 20-80?

holrock commented 6 years ago

As we updated our documents, please see the README file.