Absolve/.absolverc at master · Genentech/Absolve · GitHub

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;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;
;  Absolve configuration parameters
;
;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;


[HMM]
ExhaustiveHMMThresh=70.0
FilterHMMThresh=70.0
HeavyHMMFile=absolveVH.hmm
LightHMMFile=absolveVL.hmm
ScFVHMMFile=absolveSCFV.hmm


[TEMP]
TempFolderForDistrib=/tmp

[CH]
A = 2
B = 2
OINS = 3
EINS = 1
ODEL = 3
EDEL = 1
CLIP3 = 5
CLIP5 = 5
MIN_SEED_LEN = 5
MIN_SCORE = -3000


; params for BWA mem aligner
[VH]
A = 2
B = 2
OINS = 3
EINS = 1
ODEL = 3
EDEL = 1
CLIP3 = 5
CLIP5 = 5
MIN_SEED_LEN = 12
MIN_SCORE = -3000

[JH]
A = 2
B = 2
OINS = 3
EINS = 1
ODEL = 3
EDEL = 1
CLIP3 = 5
CLIP5 = 5
MIN_SEED_LEN = 5
MIN_SCORE = -3000

[CL]
A = 2
B = 2
OINS = 3
EINS = 1
ODEL = 3
EDEL = 1
CLIP3 = 5
CLIP5 = 5
MIN_SEED_LEN = 5
MIN_SCORE = -3000

[VL]
A = 2
B = 2
OINS = 3
EINS = 1
ODEL = 3
EDEL = 1
CLIP3 = 5
CLIP5 = 5
MIN_SEED_LEN = 12
MIN_SCORE = -3000

[JL]
A = 2
B = 2
OINS = 3
EINS = 1
ODEL = 3
EDEL = 1
CLIP3 = 5
CLIP5 = 5
MIN_SEED_LEN = 5
MIN_SCORE = -3000

[pairedend]
NT_PAIR_MIN = 18