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chore: rebuild [skip ci]
1 parent 4d6e210 commit 10ebf4f

9 files changed

Lines changed: 11 additions & 9 deletions

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data_output/nextstrain/orthohantavirus/andv/l/unreleased/pathogen.json

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"alignmentParams": {
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"penaltyGapExtend": 1,
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"penaltyGapOpen": 8,
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"penaltyGapOpenInFrame": 9,
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"penaltyGapOpenOutOfFrame": 10,
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"penaltyGapOpenInFrame": 15,
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"penaltyGapOpenOutOfFrame": 18,
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"penaltyMismatch": 1,
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"scoreMatch": 5,
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"retryReverseComplement": true,

data_output/nextstrain/orthohantavirus/andv/l/unreleased/tree.json

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data_output/nextstrain/orthohantavirus/andv/m/unreleased/pathogen.json

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@@ -20,8 +20,8 @@
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"alignmentParams": {
2121
"penaltyGapExtend": 1,
2222
"penaltyGapOpen": 8,
23-
"penaltyGapOpenInFrame": 9,
24-
"penaltyGapOpenOutOfFrame": 10,
23+
"penaltyGapOpenInFrame": 15,
24+
"penaltyGapOpenOutOfFrame": 18,
2525
"penaltyMismatch": 1,
2626
"scoreMatch": 5,
2727
"retryReverseComplement": true,

data_output/nextstrain/orthohantavirus/andv/m/unreleased/tree.json

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data_output/nextstrain/orthohantavirus/andv/s/unreleased/pathogen.json

Lines changed: 4 additions & 2 deletions
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2020
"alignmentParams": {
2121
"penaltyGapExtend": 1,
2222
"penaltyGapOpen": 8,
23-
"penaltyGapOpenInFrame": 9,
24-
"penaltyGapOpenOutOfFrame": 10,
23+
"penaltyGapOpenInFrame": 15,
24+
"penaltyGapOpenOutOfFrame": 18,
2525
"penaltyMismatch": 1,
2626
"scoreMatch": 5,
2727
"retryReverseComplement": true,
28+
"excessBandwidth": 50,
29+
"terminalBandwidth": 100,
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"allowedMismatches": 10,
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"minSeedCover": 0.12,
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"minLength": 100

data_output/nextstrain/orthohantavirus/andv/s/unreleased/tree.json

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