Alamut Batch protocols

Alamut Batch specifications

Information


Unique identifier OMICS_05999
Name Alamut Batch
Software type Toolkit/Suite
Interface Command line interface
Restrictions to use License purchase required
Operating system Unix/Linux
License Commercial
Computer skills Advanced
Stability Stable
Maintained Yes

Taxon


  • Primates
    • Homo sapiens

Versioning


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Alamut Batch IN pipelines

 (3)
2017
PMCID: 5473876
PMID: 28623346
DOI: 10.1038/s41598-017-02434-4

[…] and coverage analysis were performed with clc genomics workbench v6.0.4 (clc bio). sequencing coverage is summarized in supplementary table s1. called variants with coverage ≥3 were annotated with alamut batch (interactive biosoftware). only variants with population frequencies less than 10% were considered, according to public databases ncbi dbsnp (http://www.ncbi.nlm.nih.gov/projects/snp/), […]

2016
PMCID: 4777533
PMID: 26938746
DOI: 10.1371/journal.pone.0150381

[…] of 50. variants, where two different alleles were observed, were accepted as heterozygote variant calls if the frequency of the minor variant allele was >0.15. variants were analysed using alamut batch (interactive biosoftware, france). mc1r variants were grouped according to potential significance. all missense, non-sense, and frameshift mutations (s2 table) were assigned to the mc1r […]

2015
PMCID: 4712775
PMID: 26925222
DOI: 10.5256/f1000research.7245.r9442

[…] with somatic low stringency mutation workflow and default settings. bam files of raw reads were reviewed using integrative genomics viewer v2.3 37, 38., dicer1 sequence variants were annotated with alamut batch software (interactive biosoftware, rouen, france), with reference to dicer1 transcript record nm_177438.2. nonsense, frameshift and canonical splice-site mutations were considered loss […]

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