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committed
[167b2f]
Add cigar msg.
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committed
[d3dfb9]
Finish bntseq and fragcluster(2013/9/21)
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[e1002c]
Initial commit
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[1d491d]
Fix frag_cluster
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committed
[277310]
Fix the connection with SW-extending
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committed
[9d73ab]
Add SW-extending files...
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committed
[9c42a8]
Fix a bug of boundary-repair
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committed
[05a8d5]
fix an error in sam_parse
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committed
[797b7c]
add funcion: cut-cigar
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<REDACTED>
committed
[47815b]
fix a bug
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<REDACTED>
committed
[0b8140]
Main-Line AND Two-End
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<REDACTED>
committed
[6cfc58]
add sam_parse
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<REDACTED>
committed
[2750dc]
xxxx
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committed
[3c311e]
add GEM option
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<REDACTED>
committed
[57148b]
same2last
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<REDACTED>
committed
[ac171f]
fix bug in cigar-merge
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<REDACTED>
committed
[5d833d]
handle 'overlap-ins' case
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<REDACTED>
committed
[63cf91]
fix a small bug on seed-clustering
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<REDACTED>
committed
[ade9cb]
fix one bug
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<REDACTED>
committed
[8e2d2b]
fix a bug in ksw_extend_core
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<REDACTED>
committed
[381650]
'overlap-ins' finished
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<REDACTED>
committed
[b0f371]
Find SVs
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<REDACTED>
committed
[3c2966]
fix some small bugs
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<REDACTED>
committed
[39734a]
fix a bug in extend_c
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<REDACTED>
committed
[bc1452]
index ref instead of read seq in 'hash-split-ma...
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<REDACTED>
committed
[ad76e0]
'overlap-ins' in [hash-split-mapping] (unfinished)
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<REDACTED>
committed
[3c1963]
Add cigar msg.
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<REDACTED>
committed
[f1f8d4]
SV breakpoints analyze
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<REDACTED>
committed
[9954a7]
Fix some mem-leak bugs
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<REDACTED>
committed
[3493e5]
modify ksw_extend
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<REDACTED>
committed
[32b3c7]
fix some bugs
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<REDACTED>
committed
[e7b8ea]
modify 'merge_cigar'
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<REDACTED>
committed
[fadb8b]
Fix some warnings and potential bugs.
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committed
[5a6306]
1.Use 'Tree-pruning' in DP
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committed
[68463e]
fix bugs in gem_parse
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<REDACTED>
committed
[b25d84]
boundary-repair has some problems
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<REDACTED>
committed
[bfb204]
new .gitignore
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committed
[3854b4]
Main-line and combine
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<REDACTED>
committed
[7bd271]
modify DP strategy of frag-dp
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<REDACTED>
committed
[20d64b]
fix an error in trigger-setting
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<REDACTED>
committed
[2dbd58]
add line-trigger
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committed
[446899]
add ksw_bi_extend
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committed
[376388]
add new parameter mechanism
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<REDACTED>
committed
[9e2a29]
fix bugs
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<REDACTED>
committed
[278fbc]
use 'ksw_extend' to fulfill extension
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<REDACTED>
committed
[1c2d2d]
add bwt_aln(2)
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<REDACTED>
committed
[dfd824]
delete split-match in hash-mapping
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<REDACTED>
committed
[805ec7]
writing cigar-merge...
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<REDACTED>
committed
[e9d4fc]
multi-res for duplication regions
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committed
[b07b2d]
new .gitignore
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committed
[56150f]
fix bugs in ksw_extend2()
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committed
[169fa2]
xxx
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committed
[8d9ad3]
add bwt_aln
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<REDACTED>
committed
[632177]
Merge branch 'master' of https://github.com/gao...
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committed
[b13b1e]
split hash map for SV
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<REDACTED>
committed
[3998d6]
multi-SV allowed split-mapping
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committed
[029c0f]
fix errors in trigger-pulling
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<REDACTED>
committed
[b63afb]
fix a bug in merge-cigar
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<REDACTED>
committed
[3ff6ec]
fix some git error
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committed
[1b6b4f]
finish hash-split-map
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<REDACTED>
committed
[4eb67e]
first commit for Best Coverage and Connect
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<REDACTED>
committed
[4afb09]
Finish frag_extend(extend intervals and seed)
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<REDACTED>
committed
[cedefa]
unify codes where _push_cigar() is used
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<REDACTED>
committed
[325351]
fix bugs in sw_extend
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<REDACTED>
committed
[089f9e]
add [cigar_gen] in 'ksw_extend'
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<REDACTED>
committed
[dd9ddf]
add zdrop to ksw_extend
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<REDACTED>
committed
[b12c7e]
fix [bwt_aln]
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<REDACTED>
committed
[12ebea]
little changes
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<REDACTED>
committed
[53bc37]
Find SV
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<REDACTED>
committed
[aa5b17]
multi-lines' format result
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<REDACTED>
committed
[165105]
fix hash-split-map bugs
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<REDACTED>
committed
[370fac]
add MEM strategy in frag-dp
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<REDACTED>
committed
[5b5c76]
fix a small bug of mem realloc
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<REDACTED>
committed
[ae68a6]
fix a bug in multi-line-dp
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<REDACTED>
committed
[ce2eec]
[hash_split_map] replace 'ksw_global' with 'ksw...
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<REDACTED>
committed
[3992e9]
'overlap-ins' in [hash-split-mapping]
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<REDACTED>
committed
[b2fe54]
Writing cigar-merge (2)...
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<REDACTED>
committed
[3c6a9c]
Rewrite the "path_dp"
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<REDACTED>
committed
[bdf5fc]
little modify for output
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<REDACTED>
committed
[719e81]
bug exists
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<REDACTED>
committed
[f85b55]
modify some parameter message
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<REDACTED>
committed
[f9f1cc]
modify 'bwt_aln'
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<REDACTED>
committed
[a1c997]
restrict line-merge, set extend-boundary uniformly
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<REDACTED>
committed
[32f401]
remain_line_DP(bugs)
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<REDACTED>
committed
[83a018]
modifying re-DP for remain-regions
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<REDACTED>
committed
[2701e9]
polish
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committed
[c7f726]
higher efficiency with multi-thread option
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<REDACTED>
committed
[fad13d]
coding 'bwt_aln' ...
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<REDACTED>
committed
[4aa73c]
Revert "remain_line_DP(bugs)"
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<REDACTED>
committed
[d7b4e6]
add min-heap in path-filtering
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<REDACTED>
committed
[95cddd]
limit the length of remain-regs
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<REDACTED>
committed
[671142]
Revert "Revert "1. polish with parameters""
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[c2d4d9]
Update README.md
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[42ec66]
Update README.md
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[69c11e]
dev for pthread
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[c6cd2a]
modify res_filter/output
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<REDACTED>
committed
[303b51]
new strategy dealing with overlapped-ins
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<REDACTED>
committed
[3a1740]
Revert "1. polish with parameters"
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<REDACTED>
committed
[5c20fc]
1. modify [sw_mid_fix]
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<REDACTED>
committed
[36ebc9]
replace 'left/right_bound' with 'ksw_extend'