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Table 1 Comparison of three solutions

From: BugMat and FindNeighbour: command line and server applications for investigating bacterial relatedness

Implementation

BugMat

FindNeighbour1

FindNeighbour2

Presentation

Command Line

Server application

Server application

Technology

In-memory matrix

In-memory matrix

In-memory reference based sequences

Can add samples

No

Yes

Yes

Role in production environment

Remove invariant sites before maximal likelihood tree generation

Store pairwise distances between samples

Store significant pairwise distances between samples

Stores all pairwise distances

Yes

Yes

No (customisable)

Uses database for sequence metadata storage

No

Yes

Yes

Uses database for pairwise distance storage

No

No

Yes

Requires reference sequence specified

No

No

Yes

Implementation

C++

Python, C++

Python

  1. Comparison of three solutions. A comparison of the approaches taken by three solutions (BugMat, Findneighbour, Findneighbour2) is shown