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What is Boiler? — Boiler 1.0.1 documentation

Boiler is a SAM compression tool designed for downstream isoform assembly and quantitation. Boiler achieves a significant space improvement over other compression tools by discarding unnecessary fields such as sequence information and quality scores. It also tends to shuffle read pairings within highly-covered exons. However, Boiler will always return exact coverage levels over any region of the genome. You can download the latest version of Boiler from https:/ github.com/jpritt/boiler. On Read the Docs.

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What is Boiler? — Boiler 1.0.1 documentation | boiler.readthedocs.io Reviews

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Boiler is a SAM compression tool designed for downstream isoform assembly and quantitation. Boiler achieves a significant space improvement over other compression tools by discarding unnecessary fields such as sequence information and quality scores. It also tends to shuffle read pairings within highly-covered exons. However, Boiler will always return exact coverage levels over any region of the genome. You can download the latest version of Boiler from https:/ github.com/jpritt/boiler. On Read the Docs.

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What is Boiler? — Boiler 1.0.1 documentation | boiler.readthedocs.io Reviews

https://boiler.readthedocs.io

Boiler is a SAM compression tool designed for downstream isoform assembly and quantitation. Boiler achieves a significant space improvement over other compression tools by discarding unnecessary fields such as sequence information and quality scores. It also tends to shuffle read pairings within highly-covered exons. However, Boiler will always return exact coverage levels over any region of the genome. You can download the latest version of Boiler from https:/ github.com/jpritt/boiler. On Read the Docs.

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Tutorial — Boiler 1.0.1 documentation

http://boiler.readthedocs.io/en/latest/tutorial.html

To begin, download the latest version of Boiler from https:/ github.com/jpritt/boiler. Add the main directory to your path and make sure you have Python version 3 or higher. You will also need SAMtools, which you can download from samtools.sourceforge.net. Download the SAM dataset here. And move it to your working directory. Mkdir compressed python3 boiler.py compress - frag-len-z-cutoff 0.125 accepted hits.sam compressed/compressed.bl. You should now have a file. Roughly 4.3 MB in size. To query the cov...

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Reference — Boiler 1.0.1 documentation

http://boiler.readthedocs.io/en/latest/reference.html

Boiler has three modes, each described in more detail below:. 8211; compress a SAM file. 8211; query a compressed file. 8211; expand a compressed file, outputting a SAM file. Boiler is invoked by entering. Python3 boiler.py mode [args]. To run with PyPy instead of Python, run. Pypy boiler.py mode [args]. To get help for a given mode, enter. Python3 boiler.py mode -h. Boiler requires a SAM file to compress. To convert a BAM file to SAM with SAMtools, run:. The following optional arguments are available:.

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Welcome to Read the Docs — Boiler stable documentation

http://boiler.readthedocs.io/en/stable

Welcome to Read the Docs. Welcome to Read the Docs. Welcome to Read the Docs. This is an autogenerated index file. Home/docs/checkouts/readthedocs.org/user builds/boiler/checkouts/stable/index.rst. Home/docs/checkouts/readthedocs.org/user builds/boiler/checkouts/stable/README.rst. File with your own content. If you want to use another markup, choose a different builder in your settings. Provided by Read the Docs. On Read the Docs. Free document hosting provided by Read the Docs.

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What is Boiler? — Boiler 1.0.1 documentation

Boiler is a SAM compression tool designed for downstream isoform assembly and quantitation. Boiler achieves a significant space improvement over other compression tools by discarding unnecessary fields such as sequence information and quality scores. It also tends to shuffle read pairings within highly-covered exons. However, Boiler will always return exact coverage levels over any region of the genome. You can download the latest version of Boiler from https:/ github.com/jpritt/boiler. On Read the Docs.

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