Indelocator protocols

Indelocator computational protocol

Indelocator specifications


Unique identifier OMICS_00098
Name Indelocator
Software type Application/Script
Interface Command line interface
Restrictions to use None
Input format BAM
Output data A high-sensitivity list of putative indel events containing large numbers of false positives.
Operating system Unix/Linux
Programming languages Java
Computer skills Advanced
Stability No
Maintained No



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Indelocator IN pipelines

PMCID: 5529435
PMID: 28747664
DOI: 10.1038/s41598-017-06811-x

[…] amplification products have the same start and stop positions making it impossible to distinguish different dna fragments from pcr duplicate reads33. snvs were identified using mutect10, indels with indelocator and annovar to annotate the identified variants. we applied the same additional filters we used for wes analysis to the identified snvs and indels., we checked for a higher frequency […]

PMCID: 4975391
PMID: 27494029
DOI: 10.1371/journal.pgen.1006242

[…] with variant af between 0.05 and 0.95. allele frequencies for these snps for each sample were graphed according to nucleotide position using excel., all sequence variants identified by mutect and indelocator were reviewed. those identified in intronic and intergenic regions, and in ncrna; or with a total number of variant reads < 3 or reads present only in one direction; or those seen […]

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