Introduction

DASi is an automatic DNA cloning plan designer aimed for operating on small budgets by focusing on material re-use.

The software converts a nucleotide sequence, or a library of sequences, to an executable molecular assembly plan while optimizing material cost, assembly efficiency, and assembly time.

User Documentation

The user documentation contains high-level information for users of DASi.

• Usage
• JSON Schemas

API Reference

Detailed information about classes and methods of DASi.

• Design (dasi.design)
• Models (dasi.models)
• Cost Model (dasi.cost)
• Command Line (dasi.command_line)
• Utilities (dasi.utils)
• Exceptions (dasi.exceptions)
• Constants (dasi.constants)

Developer Documentation

The developer documentation conatins information on how to contribute to DASi.

• Code Guidelines

Features and Improvements Road Map

• ^0.0.1

  • Cleaner JSON output

  • Scoring PCR reactions for primer misprimings

  • Scoring assembly efficiencies

  • Logging to file

  • PDF design reports

  • improved design inputs

    • selection of synthesis vendors

    • primer + PCR cost

    • improved API for adding materials

    • control over design algorithms and parameters

• ^0.1

  • faster execution times

  • PDF design reports

• ^0.2

  • linear fragment design

    • support for assembly by primer annealing

• ^0.3

  • improved outputs

    • SBOL (XML) output

    • graph output

• ^1.0

  • deployment

    • web interface

    • dockerized container

• ^2.0

  • Additional assembly strategies

    • Golden-gate support

    • Linear assemblies

    • Assembly by primers

• ^3.0

  • Hierarchical clonal assembly