Reverse dependencies for bio Latest version of the following gems require bio
bio-polymarker_db_batch 0.5.1
Server for polymarker. To be used with cron
29,626 Downloads
bio-velvet 0.6.0
Parser to work with some file formats used in the velvet DNA assembler
28,528 Downloads
bio-tm_hmm 0.2.4
A bioruby plugin for interaction with the transmembrane predictor TMHMM
27,894 Downloads
egor 0.9.0
'egor' is a program for calculating environment-specific substitution tables from user ...
27,849 Downloads
bio-bigbio 0.1.6
Fasta reader, ORF emitter, sequence translation
27,558 Downloads
bio-dbla-classifier 0.7.1
Methods to classify and manipulate PfEMP1 DBL-alpha sequence tags
27,136 Downloads
bio-signalp 0.3.1
A wrapper for the signal peptide prediction algorith SignalP. Not very well supported, ...
26,619 Downloads
bio-kmer_counter 0.1.2
A biogem for counting small kmers for fingerprinting nucleotide sequences. See README f...
25,887 Downloads
scaffolder 0.5.0
Turns scaffolded contigs and annotations into a genome.
25,794 Downloads
scaffolder-test-helpers 0.4.1
Useful Helper methods and classes for testing scaffolder.
25,435 Downloads
bio-phyta 0.9.4
Pipeline to remove contaminations from EST libraries
24,840 Downloads
npsearch 2.1.8
Search for Neuropeptides based solely on the common neuropeptide markers (e.g. signal p...
23,808 Downloads
transfuse 0.5.0
See summary
22,649 Downloads
finishm 0.0.9
De-novo assemblies generally only provide draft genomes. FinishM is aimed at improving ...
22,644 Downloads
bio-fasta_retrieve 0.0.7
Gem that helps to retrieve DNA sequence from UCSC
22,375 Downloads
bio-sambamba 0.0.5
New Sambamba library comes with a command-line tool for working with SAM/BAM files. Thi...
22,284 Downloads
semin-ulla 0.9.9.1
'ulla' is a program for calculating environment-specific substitution tables from user ...
21,435 Downloads
scaffolder-annotation-locator 0.2.0
Build a genome scaffold using scaffolder and a set of annotated contigs. This tool upda...
21,382 Downloads
acnfp-trans-counter 0.2.0
A quick and dirty tool for analysis of transition and transversion frequency aross and ...
21,366 Downloads
bio-assembly 0.1.0
bioruby plugin to parse, write, and manipulate assembly data
20,614 Downloads
bio-velvet_underground 0.3.1
Bindings to some internals of the velvet assembler.
20,394 Downloads
bio-isoelectric_point 0.1.3
A bioruby plugin for calculating the isoelectric point of a protein
20,265 Downloads
bio-nexml 1.1.0
This plugin reads, writes and generates NeXML
20,192 Downloads
orf_finder 0.1.8
ORF Finder is a library that with a sequence of nucletotides it finds the all the p...
19,087 Downloads
cheripic 1.2.7
a library and commandline tool to pick causative mutation from bulks segregant sequencing
18,342 Downloads
genfrag 0.0.0.4
This is a development release. Some features are functional at this time. Genfrag allo...
18,315 Downloads
dirseq 0.4.3
FPKG (gene expression metric) calculator for metatranscriptomics
18,284 Downloads
bio-genomic-interval 0.1.2
a BioRuby plugin: handling genomic intervals,such as "chr1:123-456", and overlap state ...
17,911 Downloads
bio-cd-hit-report 0.1.0
A Ruby library for reading CD-HIT cluster reports
17,650 Downloads
neurohmmerapp 0.0.7
A Web App wrapper for NeuroHmmer, a program for validating gene predictions.
17,442 Downloads