Pinned Repositories
AMPRIL-genomes
scripts for the project of seven thaliana genomes assembly
findGSE
findGSE is a tool for estimating size of (heterozygous diploid or homozygous) genomes by fitting k-mer frequencies iteratively with a skew normal distribution model.
fixchr
GameteBinning
GameteBinning_tetraploid
This is used to achieve haplotype-resolved assembly of tetraploid genomes using gamete sequencings
genomevar
Identification of genomic differences from whole-genome alignments
msyd
plotsr
Tool to plot synteny and structural rearrangements between genomes
syri
Synteny and Rearrangement Identifier
toolbox
schneebergerlab's Repositories
schneebergerlab/syri
Synteny and Rearrangement Identifier
schneebergerlab/plotsr
Tool to plot synteny and structural rearrangements between genomes
schneebergerlab/AMPRIL-genomes
scripts for the project of seven thaliana genomes assembly
schneebergerlab/findGSE
findGSE is a tool for estimating size of (heterozygous diploid or homozygous) genomes by fitting k-mer frequencies iteratively with a skew normal distribution model.
schneebergerlab/fixchr
schneebergerlab/GameteBinning
schneebergerlab/GameteBinning_tetraploid
This is used to achieve haplotype-resolved assembly of tetraploid genomes using gamete sequencings
schneebergerlab/msyd
schneebergerlab/toolbox
schneebergerlab/DrLink
Detecting recombination breakpoints using Linked read sequencing
schneebergerlab/genomevar
Identification of genomic differences from whole-genome alignments
schneebergerlab/GameteBinning_prac
Here are the codes for a practice of gamete binning with simulated data
schneebergerlab/SHOREmap_v3.x
schneebergerlab/AMPRIL-GI
The scripts used in the project "The evolutionary dynamics of genetic incompatibilities introduced by duplicated genes in Arabidopsis thaliana"
schneebergerlab/apricot_layer_mutations
schneebergerlab/Scripts_supporting_Kiefer_Willing_et_al_2019
Scripts_supporting_Kiefer_Willing_et_al_2019
schneebergerlab/chromodo
Toolbox for genome assemblies and chromosomes
schneebergerlab/haplotype_threading
Here are the scripts for pan-genome based haplotype threading with short reads (by Craig Dent)
schneebergerlab/Hexaploid_MA_lines
scripts pertaining to analysis of the hexaploid mutation accumulation lines
schneebergerlab/RTIGER
schneebergerlab/snrna_eqtl_mapping
Pipeline for processing 10X snRNAseq data to map eQTLs in recombinant gametes