jeffbhasin

Jeff Bhasin's repositories

Annotate genomic contexts and discover functional element enrichments

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Differentially Methylated Regions (DMRs) from MBD-isolated Genome Sequencing (MiGS/MBD-seq)

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Output genomic context for a BED file of genomic ranges

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R package to sync and parse UCSC Genome Browser table data

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Strip /1 and /2 from BAM QNAME fields

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Python script to check the existence, size, and checksum of files downloaded from the Cancer Genomics Hub (CGHub)

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R tools for differential analysis of motif patterns

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R package provides support to dptscan software pipeline

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Analysis pipeline for genome-wide de novo identification of differential enrichment events from next generation sequencing data

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Visualize differentially methylated regions detected by iDPT

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Handy R Functions

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Documentation website for the Goldmine and MethylAction projects

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Demo for the MethylAction R Package

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pyfaidx: efficient pythonic random access to fasta subsequences

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Compute overlap of SNPs with regulatory elements and export to CSV or the UCSC Genome Browser

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