GitHub - kisun/Cartwright_next-gen_scripts: Python scripts for analysis of next-gen sequencing data.

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Python scripts for analysis of next-gen sequencing data.

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Name		Name	Last commit message	Last commit date
Latest commit History 9 Commits
README		README
annotate_mcl.py		annotate_mcl.py
both.py		both.py
counts-paired.py		counts-paired.py
counts.py		counts.py
percent_diff.py		percent_diff.py
shuffle_resamp.py		shuffle_resamp.py

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This is a collection of python scripts for the analysis of next-gen sequence data.

both.py: processes Illumina paired end fastq file and returns paired sequences for which read 1 and read 2 exist.

counts-paired.py: extracts mapped read counts from a sam file for paired end reads.

counts.py: extracts mapped read counts from a sam file.

annotate_mcl.py: annotates OrthoMCL ortholog sequences.

shuffle_resamp.py: creates subsampled datasets of paired-end Illumina Reads. 

percent_diff.py: calculates percent diferences in up/down regulation for mapped read counts.