Introduction

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.

Publications

  1. MuCor: mutation aggregation and correlation.
    Cite this
    Kroll KW, Eisfeld AK, Lozanski G, Bloomfield CD, Byrd JC, Blachly JS, 2016-05-01 - Bioinformatics (Oxford, England)

Credits

  1. Karl W Kroll
    Developer

  2. Ann-Katherin Eisfeld
    Developer

  3. Gerard Lozanski
    Developer

    Department of Pathology, The Ohio State University

  4. Clara D Bloomfield
    Developer

    Division of Hematology, Department of Internal Medicine, United States of America

  5. John C Byrd
    Developer

    Division of Hematology, Department of Internal Medicine, United States of America

  6. James S Blachly
    Investigator

    Division of Hematology, Department of Internal Medicine, United States of America

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Summary
AccessionBT006544
Tool TypeApplication
Category
PlatformsLinux/Unix
Technologies
User InterfaceTerminal Command Line
Download Count0
Country/RegionUnited States of America
Submitted ByJames S Blachly