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Instrument protocol library .................................................... 161

Instrument protocol overview .............................................. 161

Create a new instrument protocol ......................................... 162

Instrument protocol settings ............................................... 163

Dye sets library .............................................................. 165

Dye set overview .......................................................... 165

Create a new dye set ...................................................... 166

Dye set settings .......................................................... 167

Create a new dye set using the AnyDye template .............................. 168

Size standards library ......................................................... 170

Size standard overview .................................................... 170

Normalization size standards provided ...................................... 171

Create a new size standard ................................................ 171

Modify a factory-provided normalization size standard ........................ 172

Basecalling protocols library (primary analysis—sequencing) ...................... 173

Basecalling protocol overview .............................................. 173

Create a new basecalling protocol ......................................... 173

Basecalling protocol—Analysis settings ..................................... 176

Basecalling protocol—QV settings .......................................... 178

Sizecalling protocols library (primary analysis—fragment) ......................... 178

Sizecalling protocol overview ............................................... 178

Create a new sizecalling protocol ........................................... 179

Sizecalling protocol—Analysis settings ...................................... 181

Sizecalling protocol—QC settings ........................................... 184

QC protocols library (primary analysis—HID) ..................................... 185

QC protocol overview ...................................................... 185

Create a new QC protocol .................................................. 185

QC protocol—Analysis settings ............................................. 187

QC protocol—QC settings .................................................. 190

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CHAPTER 8 Use Security, Audit, and E-Sig functions

(SAE Module) ............................................................ 191

Administrators ............................................................... 191

Administrators overview of system security auditing and electronic signature .... 191

Conﬁgure the security system .............................................. 192

Manage user accounts .................................................... 195

Manage auditing .......................................................... 201

Generate audit reports .................................................... 204

Contents

3500/3500xL Genetic Analyzer User Guide—Data Collection Software v3.1

Number of capillaries	8
Capillary Length	50 cm
Laser	Solid-state laser
Instrument Type	Capillary electrophoresis system
Technology	Capillary Electrophoresis (CE)
Weight	95 kg
Power Requirements	100–240 V

Applied Biosystems 3500 User Manual

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