RobersonLab/vcf2snpduo

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GNU General Publi...
Created over 9 years ago
Updated over 9 years ago

RobersonLab/vcf2snpduo

RobersonLab

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Simple python script for converting a valid, multi-sample VCF file into a SNPduo compatible format.

drop_it_like_its_hot_r

Compilation of R heatmap functions.

motif_scraper

Tool for finding matches to degenerate sequence motifs in FASTA files.

ngg2

Python package to identify NGGNGG Cas9 gRNA sites in any indexed FASTA file.

snpduo

Repository for the snpduo command-line tool. The tool is designed to calculate identity-by-state in large SNP genotyping datasets. Originally developed in the lab of Dr. Jonathan Pevsner at the Kennedy Krieger Institute in Baltimore. Publication PMID: 19696932.

count_dual_indexes

C++ program to take the FASTQ files of two indexes and count the index pairs.

wustl_ris_docker_image_builds

genbankFeatureFasta2Bed

Simple python script to convert the exported features for a genbank record (FASTA format) into a 5 column BED file.

fastqSol2Phred

Simple program that converts FASTQ files in Solexa quality offset (QUAL+64) to a FASTQ file with Phred/Sanger offset (QUAL+33).

fastq_scrubber

Really hacky way to remove adapters from NGS while keeping reads in order. Recommend alt strategy with cutadapt instead.

snpduoweb

Repository for the web-based version / visualization engine for the SNPduoWeb tool. Designed to visualize identity-by-state in high-density snp data. Originally developed in the lab of Dr. Jonathan Pevsner at the Kennedy Krieger Institute in Baltimore. Publication PMID: 19696932.