Pinned Repositories
Cas9_target_site_survey
Abundance of conserved CRISPR-Cas9 target sites within the highly polymorphic genomes of Anopheles and Aedes mosquitoes from natural populations
gambiae-dispersal
An. gambiae transcontinental dispersal analysis (2019)
gittemp
Misc temp stuff
GPAT
A version Zev Kronenberg's vcflib tools
locbatch
Acoustic Localization : Batch processing of wired-array data
ngs_scripts
slides
slides, talks, and stuff like that
travc's Repositories
travc/locbatch
Acoustic Localization : Batch processing of wired-array data
travc/gambiae-dispersal
An. gambiae transcontinental dispersal analysis (2019)
travc/GPAT
A version Zev Kronenberg's vcflib tools
travc/slides
slides, talks, and stuff like that
travc/Cas9_target_site_survey
Abundance of conserved CRISPR-Cas9 target sites within the highly polymorphic genomes of Anopheles and Aedes mosquitoes from natural populations
travc/gittemp
Misc temp stuff
travc/ngs_scripts
travc/paper-Predicted-MF-Quarantine-Length
paper and supplemental materials for Evaluation of predicted medfly (Ceratitis capitata) quarantine length in the United States utilizing degree-day and agent-based models
travc/Agam-Aaeg-CRISPR-Cas9-and-Cas12a-Target-Sites
CRISPR-Cas9 and Cas12a Target Site Richness Reflects Genomic Diversity in natural populations of Anopheles gambiae and Aedes aegypti mosquitoes
travc/analysis-examples
WGS analysis examples and skeletons
travc/bcbio-nextgen
Validated, scalable, community developed variant calling and RNA-seq analysis
travc/calling_AaegL5nuc
variant calling pipeline using snakemake
travc/chamber_control
Enviromental chamber monitoring and control
travc/host_choice_GWAS_arabiensis
travc/ish_parser
Parser for NOAA ISH Files
travc/mutation-rate
travc/outbreak-reporter
Generate reports for Medfly outbreaks
travc/paper-Predicted-MF-Quarantine-Length-Data-and-Code
Data and code for the paper "Evaluation of predicted Medfly (Ceratitis capitata) quarantine length in the United States utilizing degree-day and agent-based models"
travc/picard
A set of tools (in Java) for working with next generation sequencing data in the BAM (http://samtools.github.io/hts-specs) format.
travc/raddle
The Raddle software for Rare-Allele-based Distance of Dispersal Estimation, based on Novembre & Slatkin (2009)
travc/sambamba
Tools for working with SAM/BAM data
travc/vcflib
a simple C++ library for parsing and manipulating VCF files, + many command-line utilities
travc/vcfnp
Load numpy arrays and HDF5 files from VCF (variant call format)
travc/vcftools
A set of tools written in Perl and C++ for working with VCF files, such as those generated by the 1000 Genomes Project.
travc/vt
A tool set for short variant discovery in genetic sequence data.
travc/Yam
Repository containing scripts and datasets used for the study of African Yam (Dioscorea rotundata) domestication history