RobersonLab/fastq_scrubber

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Created over 10 years ago
Updated over 10 years ago

RobersonLab/fastq_scrubber

RobersonLab

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

drop_it_like_its_hot_r

Compilation of R heatmap functions.

motif_scraper

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

vcf2snpduo

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

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).

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.