Commit 0f468fc5 authored by Damien Zammit's avatar Damien Zammit Committed by Sander Bollen
Browse files

static/getprimers.sh: Tweak parameters for primer3 call based on VCGS recommendations

parent 0a7ead31
...@@ -32,8 +32,8 @@ PRIMER_INTERNAL_WT_GC_PERCENT_GT=0.0 ...@@ -32,8 +32,8 @@ PRIMER_INTERNAL_WT_GC_PERCENT_GT=0.0
PRIMER_GC_CLAMP=0 PRIMER_GC_CLAMP=0
PRIMER_MAX_END_GC=5 PRIMER_MAX_END_GC=5
PRIMER_OPT_SIZE=25 PRIMER_OPT_SIZE=25
PRIMER_MIN_SIZE=20 PRIMER_MIN_SIZE=18
PRIMER_MAX_SIZE=30 PRIMER_MAX_SIZE=25
PRIMER_MAX_NS_ACCEPTED=0 PRIMER_MAX_NS_ACCEPTED=0
PRIMER_PRODUCT_SIZE_RANGE=$1 PRIMER_PRODUCT_SIZE_RANGE=$1
PRIMER_PRODUCT_OPT_SIZE=$opt_size PRIMER_PRODUCT_OPT_SIZE=$opt_size
...@@ -42,10 +42,11 @@ PRIMER_PAIR_WT_PRODUCT_SIZE_LT=0.1 ...@@ -42,10 +42,11 @@ PRIMER_PAIR_WT_PRODUCT_SIZE_LT=0.1
P3_FILE_FLAG=1 P3_FILE_FLAG=1
SEQUENCE_INTERNAL_EXCLUDED_REGION=37,21 SEQUENCE_INTERNAL_EXCLUDED_REGION=37,21
PRIMER_EXPLAIN_FLAG=1 PRIMER_EXPLAIN_FLAG=1
PRIMER_MIN_TM=58 PRIMER_MIN_TM=57
PRIMER_MAX_TM=62 PRIMER_MAX_TM=62
PRIMER_OPT_TM=60
PRIMER_PAIR_MAX_DIFF_TM=2
PRIMER_NUM_RETURN=200 PRIMER_NUM_RETURN=200
PRIMER_MAX_HAIRPIN_TH=47
= =
EOF EOF
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