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
29,589 Downloads
bio-velvet 0.6.0
Parser to work with some file formats used in the velvet DNA assembler
28,496 Downloads
bio-tm_hmm 0.2.4
A bioruby plugin for interaction with the transmembrane predictor TMHMM
27,875 Downloads
egor 0.9.0
'egor' is a program for calculating environment-specific substitution tables from user ...
27,839 Downloads
bio-bigbio 0.1.6
Fasta reader, ORF emitter, sequence translation
27,534 Downloads
bio-dbla-classifier 0.7.1
Methods to classify and manipulate PfEMP1 DBL-alpha sequence tags
27,115 Downloads
bio-signalp 0.3.1
A wrapper for the signal peptide prediction algorith SignalP. Not very well supported, ...
26,603 Downloads
bio-kmer_counter 0.1.2
A biogem for counting small kmers for fingerprinting nucleotide sequences. See README f...
25,868 Downloads
scaffolder 0.5.0
Turns scaffolded contigs and annotations into a genome.
25,786 Downloads
scaffolder-test-helpers 0.4.1
Useful Helper methods and classes for testing scaffolder.
25,416 Downloads
bio-phyta 0.9.4
Pipeline to remove contaminations from EST libraries
24,825 Downloads
npsearch 2.1.8
Search for Neuropeptides based solely on the common neuropeptide markers (e.g. signal p...
23,795 Downloads
transfuse 0.5.0
See summary
22,637 Downloads
finishm 0.0.9
De-novo assemblies generally only provide draft genomes. FinishM is aimed at improving ...
22,612 Downloads
bio-fasta_retrieve 0.0.7
Gem that helps to retrieve DNA sequence from UCSC
22,356 Downloads
bio-sambamba 0.0.5
New Sambamba library comes with a command-line tool for working with SAM/BAM files. Thi...
22,273 Downloads
semin-ulla 0.9.9.1
'ulla' is a program for calculating environment-specific substitution tables from user ...
21,425 Downloads
scaffolder-annotation-locator 0.2.0
Build a genome scaffold using scaffolder and a set of annotated contigs. This tool upda...
21,371 Downloads
acnfp-trans-counter 0.2.0
A quick and dirty tool for analysis of transition and transversion frequency aross and ...
21,360 Downloads
bio-assembly 0.1.0
bioruby plugin to parse, write, and manipulate assembly data
20,598 Downloads
bio-velvet_underground 0.3.1
Bindings to some internals of the velvet assembler.
20,361 Downloads
bio-isoelectric_point 0.1.3
A bioruby plugin for calculating the isoelectric point of a protein
20,252 Downloads
bio-nexml 1.1.0
This plugin reads, writes and generates NeXML
20,181 Downloads
orf_finder 0.1.8
ORF Finder is a library that with a sequence of nucletotides it finds the all the p...
19,080 Downloads
cheripic 1.2.7
a library and commandline tool to pick causative mutation from bulks segregant sequencing
18,321 Downloads
genfrag 0.0.0.4
This is a development release. Some features are functional at this time. Genfrag allo...
18,311 Downloads
dirseq 0.4.3
FPKG (gene expression metric) calculator for metatranscriptomics
18,268 Downloads
bio-genomic-interval 0.1.2
a BioRuby plugin: handling genomic intervals,such as "chr1:123-456", and overlap state ...
17,896 Downloads
bio-cd-hit-report 0.1.0
A Ruby library for reading CD-HIT cluster reports
17,639 Downloads
neurohmmerapp 0.0.7
A Web App wrapper for NeuroHmmer, a program for validating gene predictions.
17,417 Downloads