AbMining ToolBox statistics

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AbMining ToolBox specifications

Information


Unique identifier OMICS_04063
Name AbMining ToolBox
Software type Package/Module
Interface Command line interface
Restrictions to use None
Biological technology Illumina, Life Technologies, Roche
Operating system Unix/Linux
Programming languages Python
License GNU General Public License version 2.0
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


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Maintainer


  • person_outline Csaba Kiss <>

Publication for AbMining ToolBox

AbMining ToolBox in publications

 (3)
PMCID: 5810246
PMID: 29472918
DOI: 10.3389/fimmu.2018.00118

[…] available to researchers, therefore, specialized pipelines for the analysis of recombinant antibody libraries, either na├»ve or in vitro selected against particular antigens, have been developed. the abmining toolbox is particularly suited for identifying vh cdr3, which is determined by using a hidden markov model (hmm) that captures the conserved sequences upstream and downstream of the cdr3 (). […]

PMCID: 5718813
PMID: 29049006
DOI: 10.1080/21645515.2017.1379638

[…] downloaded from the ion torrent server (thermo fisher scientific) after running the file generator plugin and reads over 400 bases long and with phred quality score >20 were selected using the abmining toolbox suite. the output fasta file was split into blocks of 500,000 reads and submitted to the imgt high v-quest server. the output data were clustered into clonotypes based on unique cdr3 […]

PMCID: 4081070
PMID: 24861620
DOI: 10.1093/nar/gku444

[…] invitrogen). each sample was prepared with a distinct barcode to allow a multiplex assay on a single ion 316 chip (life technologies). the raw data from ion torrent sequencing was processed by the abmining toolbox ()., this section is organized in three parts. we first describe the transgenic construction of a working gene regulatory unit, to create a biosensor that can detect exogenously […]


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AbMining ToolBox institution(s)
New Mexico Consortium, Mexico

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