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[EXP] add sourmash distance estimation #1788

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f728db1
init dist utils
bluegenes Jan 13, 2022
70d2ae2
add confidence tests
bluegenes Jan 13, 2022
6c061a0
optionally return sim/ident instead
bluegenes Jan 13, 2022
6da758e
add ani estimation to signature
bluegenes Jan 13, 2022
bd6485d
return confidence interval in addition to point estimate
bluegenes Jan 13, 2022
2177843
return ANI from compare
bluegenes Jan 14, 2022
4d61a38
add containment ANI tests to test_compare
bluegenes Jan 14, 2022
0e351b8
init compare ANI tests
bluegenes Jan 14, 2022
66a570f
add option
bluegenes Jan 14, 2022
530ab76
ani in prefetch and gather
bluegenes Jan 14, 2022
361bb4d
test ani from precalculated score
bluegenes Jan 14, 2022
b012f5a
return_ANI --> return_ani
bluegenes Jan 14, 2022
48b5ccf
remaining return_ANI changes
bluegenes Jan 14, 2022
5da01cc
cleanup unused fn
bluegenes Jan 14, 2022
f452d9e
spacing
bluegenes Jan 14, 2022
64b8b96
fix mc kmers
bluegenes Jan 17, 2022
70eb0ee
add corresponding mh methods
bluegenes Jan 17, 2022
7819e3c
merge in latest
bluegenes Jan 17, 2022
8ec9e10
round kmers for jaccard
bluegenes Jan 17, 2022
357aa58
allow confidence tuning
bluegenes Jan 18, 2022
af036b8
enable bp --> ANI
bluegenes Jan 19, 2022
71a859b
fix c to dist in search
bluegenes Jan 19, 2022
d284a24
optionally estimate query ani while summarizing gather results
bluegenes Jan 19, 2022
15db152
addl cols in gatherresult
bluegenes Jan 19, 2022
ef4dee4
addl prefetch cols; test ani in summarize_gather_at
bluegenes Jan 20, 2022
581b404
add tests for ani_threshold
bluegenes Jan 20, 2022
0adc5f2
fix typo
bluegenes Jan 20, 2022
041edf1
addl tests
bluegenes Jan 20, 2022
75402f3
report CI in prefetch, gather bc I wants them for testing
bluegenes Jan 20, 2022
ae97dc0
estimate ANI during search
bluegenes Jan 25, 2022
ab5f2fe
search_scaled
bluegenes Jan 26, 2022
3b9bfe7
wade into downsampling
bluegenes Jan 26, 2022
fdec49b
dist comment
bluegenes Jan 26, 2022
8e268f0
handle downsampling in minhash, signature ANI fns
bluegenes Feb 2, 2022
4aed030
Merge branch 'latest' into add-dist-est
bluegenes Feb 2, 2022
845abd4
Merge branch 'latest' into add-dist-est
bluegenes Feb 8, 2022
727ee7f
whoops, fix rogue test
bluegenes Feb 9, 2022
962469a
Merge branch 'latest' into add-dist-est
bluegenes Feb 9, 2022
bdc67a6
Merge branch 'latest' into add-dist-est
bluegenes Mar 8, 2022
e579e3a
Add dist est (#1860)
mahmudhera Mar 12, 2022
b02601f
Merge branch 'latest' into add-dist-est
bluegenes Mar 12, 2022
a349d75
enable just point estimate for distance_to_identity
bluegenes Mar 12, 2022
58f2a07
save in progress changes
bluegenes Mar 13, 2022
2f4dc37
upd
bluegenes Apr 1, 2022
9495198
Merge branch 'latest' into add-dist-est
bluegenes Apr 2, 2022
e8c9997
Merge branch 'latest' into add-dist-est
bluegenes Apr 15, 2022
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Merge branch 'latest' into add-dist-est
  • Loading branch information
bluegenes authored Mar 8, 2022
commit bdc67a6faa39f40f650881518f47020641c771bb

This merge commit was added into this branch cleanly.

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