Pinned Repositories
cluster-monitor
View the status of the slurm cluster via a web interface.
DiscoverY
K-mer based classifier for Y-contig identification from Whole Genome Assemblies
great-ape-Y-evolution
mafft-dunovo
An adaptation of the MAFFT multiple sequence aligner for use in the Du Novo pipeline.
Mito_nuclear_incompatibility
Repository containing data files and scripts for the mito-nuclear paper
NoiseCancellingRepeatFinder
Noise-Cancelling Repeat Finder
nonB-RegVar
This repository contains all the computational tools used in our manuscript "Non-B DNA: The major contributor to small- and large-scale variation in nucleotide substitution frequencies across the genome".
overlaps
RecoverY
K-mer based read classification for Y-chromosome specific sequencing and assembly
T2T_primate_XY
makovalab-psu's Repositories
makovalab-psu/NoiseCancellingRepeatFinder
Noise-Cancelling Repeat Finder
makovalab-psu/DiscoverY
K-mer based classifier for Y-contig identification from Whole Genome Assemblies
makovalab-psu/T2T_primate_XY
makovalab-psu/RecoverY
K-mer based read classification for Y-chromosome specific sequencing and assembly
makovalab-psu/overlaps
makovalab-psu/cluster-monitor
View the status of the slurm cluster via a web interface.
makovalab-psu/great-ape-Y-evolution
makovalab-psu/AmpliCoNE-tool
AmpliCoNE: Ampliconic Copy Number Estimator
makovalab-psu/L1_Project
makovalab-psu/macaque-duplexSeq
makovalab-psu/mitonuclear_expression
This is a repository for the article "Exploring the effects of mitonuclear interactions on mitochondrial DNA gene expression in humans" (doi: 10.3389/fgene.2022.797129).
makovalab-psu/Mt_heteroplasmy
makovalab-psu/nonB-RegVar
This repository contains all the computational tools used in our manuscript "Non-B DNA: The major contributor to small- and large-scale variation in nucleotide substitution frequencies across the genome".
makovalab-psu/GTEx_Testis_Analysis
This repository contains scripts used for the analysis of 170 whole genome and testis RNAseq data set.
makovalab-psu/Y-AmpGene_CN_GE_GreatApes
Ampliconic genes on the great ape Y chromosomes
makovalab-psu/YAG_analysis
Analysis scripts for "Transcript Isoform Diversity of Ampliconic Genes on the Y Chromosome in Great Apes"
makovalab-psu/ChildhoodObesity_SIBSIGHT-Epigenetics
makovalab-psu/G4_Selection
makovalab-psu/g4sscs
makovalab-psu/HalfDeep
Automated detection of intervals covered at half depth by sequenced reads.
makovalab-psu/heterochromatin
High inter- and intraspecific turnover of satellite repeats in great apes
makovalab-psu/InsightPRSConstruction
makovalab-psu/kalign-dunovo
An adaptation of the Kalign multiple sequence aligner for use in the Du Novo pipeline.
makovalab-psu/mouse-duplexSeq
makovalab-psu/nick-bfx
Central repository for generally useful scripts
makovalab-psu/nick-singletons
One-off scripts used in analyses of specific datasets.
makovalab-psu/nonB-Seq-Errors
makovalab-psu/nonBKinetics
makovalab-psu/opl
Analysis scripts and notebooks accompanying a paper on mitochondrial heteroplasmy
makovalab-psu/T2T_primate_autosomes
Code from the Makova lab for the T2T primates autosome paper.