Attila Manual

User Manual:

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ATTILA User GuideUniversity of Brasilia2016
About ATTILAATTILA (AutomaTed Tool For Immunoglobulin Analysis) searches for candidateimmunoglobulin sequences in phage display libraries, generating as main output a list of se-quences of heavy and light chain, which were selected by phage display experiment, and codefor antibody fragments that can probably bind to the target molecule. ATTILA packagehas programs developed in C, Perl and Shell script to execute eight steps of a completelyautomated analysis (Figure 1). The third-party tools used by ATTILA are listed in sec-tion Requirements.Figure 1: Analysis performed by ATTILA.ATTILA can analyse human sequences coding for variable domain of heavy (VH) andlight chain (VL), produced by phage display technology. Therefore, the input for the methodmust be VH and VL libraries, from initial and final rounds. Considering that our approachuses distances between canonical aminoacid residues of variable domain based on humansequences, the analysis may also be performed on mouse sequences, since their distances aresimilar to those of human.The package has a very simple structure, with two directories, called data and programs,together with this user guide and an example of configuration file. The directory datacontains human databases from NCBI, used by IgBlast to perform germline classification,while programs directory keeps all scripts and programs of the method.1

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