Pinned Repositories
539locusTurtle
AfterQC
Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data
ambystomaCapture
Analysis scripts and data relating to "Exon Capture Optimization in Large-Genome Amphibians"
ARC
Assembly by Reduced Complexity (ARC)
clustOpt
Scripts for the optimization of RADseq clustering thresholds in population genetics
cPWP
Program to infer pairwise pi among individuals using aligned short-read sequencing data.
CTSprobes
Analysis scripts for "Exon Capture Optimization in Large-Genome Amphibians (Ambystoma spp.)"
frogpipe
Bioinformatics pipeline to be tested on frogs Illumina run
frogpipe2
Frogpipe reboot
GaryNewts
Data processing pipeline for Gary's newts on maven
atcg's Repositories
atcg/clustOpt
Scripts for the optimization of RADseq clustering thresholds in population genetics
atcg/cPWP
Program to infer pairwise pi among individuals using aligned short-read sequencing data.
atcg/frogpipe
Bioinformatics pipeline to be tested on frogs Illumina run
atcg/539locusTurtle
atcg/AfterQC
Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data
atcg/ambystomaCapture
Analysis scripts and data relating to "Exon Capture Optimization in Large-Genome Amphibians"
atcg/ARC
Assembly by Reduced Complexity (ARC)
atcg/CTSprobes
Analysis scripts for "Exon Capture Optimization in Large-Genome Amphibians (Ambystoma spp.)"
atcg/frogpipe2
Frogpipe reboot
atcg/GaryNewts
Data processing pipeline for Gary's newts on maven
atcg/herpSeqGrowth
Code for data aggregation and figure generation for our review in Annual Reviews of Animal Biosciences
atcg/manderCap
atcg/manderCap2
atcg/MitoNuc
atcg/ModernPhylogeny
Aggregate DNA data from NCBI, analyze, and publish online phylognies
atcg/NGSTools
NGSTools
atcg/pyrad
Assembly and analysis of RADseq data sets
atcg/RedPill
OS X screen saver of scrolling green A's, T's, C's, and G's
atcg/reptileAmphibianSeqGrowth
Code for data aggregation and figure generation for our review in Annual Reviews of Animal Biosciences
atcg/shinyCTS
atcg/SNPs2alleles
Script for converting biallelic individual SNP genotype data into per-locus population-level allele count data for use with TreeMix
atcg/splicefinder
atcg/testNotebook
atcg/tortGen
atcg/tortGen2
Desert tortoise data processing on maven
atcg/tortQC
QC for desert tortoise
atcg/turtleBackbone
atcg/vcfToHaploytypeTrees
Starting with a phased (e.g. with beagle) VCF, parse into independent loci, build alignment files with reference, pull in ax/tig data, build trees, and visualize
atcg/velvetTarget
Optimize kmer choice for velvet in target enrichment experiments.
atcg/vim
vim-configs