Project

Reverse Dependencies for shoulda

The projects listed here declare shoulda as a runtime or development dependency

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A bioruby plugin for calculating the isoelectric point of a protein
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Basic tools for parsing, searching, and comparing JASPAR motifs; Based on Bio.motifs module in Biopython
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Provide access to the IlluminaHumanAnnotations. Database comes form Bioconductor's package lumiHumanIDMapping
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A biogem for counting small kmers for fingerprinting nucleotide sequences. See README for details.
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This is very scrappy at the moment, and will need to be seriously cleaned up. It does what I need it to do for now. I'll fix it up in the coming weeks. Promise :)
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Simple, under development Ruby solution for UCSC LiftOver tool
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Client package for creating, sending, recieving and consuming SOAP messages from BioModels search engine
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Help for working with the output of the .delta files produced by nucmer and promer
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Tools to find similarity between pangenomes.
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Pipeline to remove contaminations from EST libraries
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The PlasmoAP algorithm (Foth and Ralph et. al. 2003) predicts apicoplast transit peptides in Plasmodium falciparum. This is an implementation of that algorithm.
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The project is in a healthy, maintained state
Repository of tools developed at Crop Genetics in JIC to work with polyploid wheat
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Store relationships in a triple-store, such as gene enrichment and QTL, and use this information for inference and causality
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Simple classes for parsing SAM, CIGAR and MD:Z strings, including slices. Methods for calling mutations in HGVS format and looking up consequences using Ensembl VEP REST API. Developed for calling mutations at an expected position in an alignment - e.g. Amplicon sequencing of CRISPR-induced mutat...
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A minimal web service on the top of sinatra to query bam files
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