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1. py_bowtie_fastq_2_sam py_bowtie_fastq_2_sam Public

   takes folder of paired end fastq files and generates a single sam file

   Python 2 4

2. py_sam_2_spikenormbg py_sam_2_spikenormbg Public

   takes a folder of data sam files and associated spike sam files to generate spike normailized bedgraphs/bigwigs with optional size selection

   Python 2 5

3. py_sam_2_avenormbg py_sam_2_avenormbg Public

   takes a folder of sam files and generates bedgraph files and big wigs with optional size selection.

   Python 2

4. py_peak_calling py_peak_calling Public

   Simple threshold based peak calling for ChIP style data

   Python 3

5. py_meta_analysis py_meta_analysis Public

   Meta analysis for a list of genomic locations

6. py_calc_cpg_from_bed py_calc_cpg_from_bed Public

   calculates CpG observed/expected for each line in a bed file