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Bryan Lajoie's Projects

amazon-ebs-autoscale icon amazon-ebs-autoscale

Don't run out of disk space on your EC2 instance when generating or working with large files. Automatically add EBS volumes to a filesystem mount point in response to disk utilization.

deepvariant icon deepvariant

DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.

genome-stratifications icon genome-stratifications

Stratification BED files from the Global Alliance for Genomics and Health (GA4GH) Benchmarking Team and the Genome in a Bottle Consortium. These files can be used as standard resource of BED files for use with GA4GH benchmarking tools such as hap.py to stratify true positive, false positive, and false negative variant calls based on genomic context.

hdf2tab icon hdf2tab

convert from HDF5 matrix format to txt/tab (tsv) matrix format

hts-specs icon hts-specs

Specifications of SAM/BAM and related high-throughput sequencing file formats

htslib icon htslib

C library for high-throughput sequencing data formats

pyvcf icon pyvcf

A Variant Call Format reader for Python.

tab2hdf icon tab2hdf

convert from txt/tab (tsv) matrix format to HDF5 matrix format

vcf2fasta icon vcf2fasta

reference fasta to diploid fasta via SNPs in VCF

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