title: MuCor: mutation aggregation and correlation.
abstract: There are many tools for variant calling and effect prediction, but little to tie together large sample groups. Aggregating, sorting and summarizing variants and effects across a cohort is often done with ad hoc scripts that must be re-written for every new project. In response, we have written MuCor, a tool to gather variants from a variety of input formats (including multiple files per sample), perform database lookups and frequency calculations, and write many types of reports. In addition to use in large studies with numerous samples, MuCor can also be employed to directly compare variant calls from the same sample across two or more platforms, parameters or pipelines. A companion utility, DepthGauge, measures coverage at regions of interest to increase confidence in calls.
  
  
  
  Source code is freely available at https://github.com/blachlylab/mucor and a Docker image is available at https://hub.docker.com/r/blachlylab/mucor/
  
  
  
  james.blachly@osumc.eduSupplementary data: Supplementary data are available at Bioinformatics online.
authors.affiliation: Division of Hematology, Department of Internal Medicine.
authors.forename: Karl W
authors.initials: KW
authors.lastname: Kroll
authors.affiliation: Department of Human Cancer Genetics and Molecular Virology.
authors.forename: Ann-Katherin
authors.initials: AK
authors.lastname: Eisfeld
authors.affiliation: Department of Pathology, The Ohio State University, Columbus, OH 43210 and.
authors.forename: Gerard
authors.initials: G
authors.lastname: Lozanski
authors.affiliation: Division of Hematology, Department of Internal Medicine, The Ohio State University James Comprehensive Cancer Center, Columbus, OH 43210, USA.
authors.forename: Clara D
authors.initials: CD
authors.lastname: Bloomfield
authors.affiliation: Division of Hematology, Department of Internal Medicine, The Ohio State University James Comprehensive Cancer Center, Columbus, OH 43210, USA.
authors.forename: John C
authors.initials: JC
authors.lastname: Byrd
authors.affiliation: Division of Hematology, Department of Internal Medicine, The Ohio State University James Comprehensive Cancer Center, Columbus, OH 43210, USA.
authors.forename: James S
authors.initials: JS
authors.lastname: Blachly
mesh_terms: D000465:Algorithms; D000818:Animals; D019295:Computational Biology; D006801:Humans; D009154:Mutation; D011381:Programming Languages; D018401:Sample Size; D012984:Software