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Repository ivar_filtervariants
Owner: iuc
Synopsis: Wrapper for ivar application: ivar filtervariants
iVar is a computational package that contains functions broadly useful for
viral amplicon-based sequencing. Additional tools for metagenomic sequencing
are actively being incorporated into iVar. While each of these functions can
be accomplished using existing tools, iVar contains an intersection of
functionality from multiple tools that are required to call iSNVs and
consensus sequences from viral sequencing data across multiple replicates. We
implemented the following functions in iVar: (1) trimming of primers and
low-quality bases, (2) consensus calling, (3) variant calling - both iSNVs and
insertions/deletions, and (4) identifying mismatches to primer sequences and
excluding the corresponding reads from alignment files.
Type: unrestricted
Revision: 16:618297d23022
This revision can be installed: True
Times cloned / installed: 738

Contents of this repository

Name Description Version Minimum Galaxy Version
Filter variants across replicates or multiple samples aligned using the same reference 1.4.2+galaxy0 21.01

Categories
Sequence Analysis - Tools for performing Protein and DNA/RNA analysis