General Information
| Description | An automated pipeline for processing DamID sequencing datasets |
| Homepage | http://owenjm.github.io/damidseq_pipeline |
Publications
damidseq_pipeline: an automated pipeline for processing DamID sequencing datasets
Summary:
DamID is a powerful technique for identifying regions of the genome bound by a DNA-binding (or DNA-associated) protein. Currently, no method exists for automatically processing next-generation sequencing DamID (DamID-seq) data, and the use of DamID-seq datasets with normalization based on read-counts alone can lead to high background and the loss of bound signal. DamID-seq thus presents novel challenges in terms of normalization and background minimization. We describe here damidseq_pipeline, a software pipeline that performs automatic normalization and background reduction on multiple DamID-seq FASTQ datasets.
Availability and implementation:
Open-source and freely available from http://owenjm.github.io/damidseq_pipeline. The damidseq_pipeline is implemented in Perl and is compatible with any Unix-based operating system (e.g. Linux, Mac OSX).
Contact:
o.marshall@gurdon.cam.ac.uk
Supplementary information:
Supplementary data are available at Bioinformatics online.
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