--- !ruby/object:Gem::Specification
name: bioinform
version: !ruby/object:Gem::Version
  version: 0.1.17
platform: ruby
authors:
- Ilya Vorontsov
autorequire: 
bindir: bin
cert_chain: []
date: 2014-05-23 00:00:00.000000000 Z
dependencies:
- !ruby/object:Gem::Dependency
  name: docopt
  requirement: !ruby/object:Gem::Requirement
    requirements:
    - - '='
      - !ruby/object:Gem::Version
        version: 0.5.0
  type: :runtime
  prerelease: false
  version_requirements: !ruby/object:Gem::Requirement
    requirements:
    - - '='
      - !ruby/object:Gem::Version
        version: 0.5.0
description: A bunch of useful classes for bioinformatics
email:
- prijutme4ty@gmail.com
executables:
- merge_into_collection
- pcm2pwm
- split_motifs
extensions: []
extra_rdoc_files: []
files:
- ".gitignore"
- Gemfile
- Guardfile
- LICENSE
- README.md
- Rakefile
- TODO.txt
- bin/merge_into_collection
- bin/pcm2pwm
- bin/split_motifs
- bioinform.gemspec
- lib/bioinform.rb
- lib/bioinform/cli.rb
- lib/bioinform/cli/convert_motif.rb
- lib/bioinform/cli/merge_into_collection.rb
- lib/bioinform/cli/pcm2pwm.rb
- lib/bioinform/cli/split_motifs.rb
- lib/bioinform/conversion_algorithms/pcm2ppm_converter.rb
- lib/bioinform/conversion_algorithms/pcm2pwm_converter.rb
- lib/bioinform/conversion_algorithms/pcm2pwm_mara_converter.rb
- lib/bioinform/conversion_algorithms/ppm2pcm_converter.rb
- lib/bioinform/conversion_algorithms/ppm2pwm_converter.rb
- lib/bioinform/data_models.rb
- lib/bioinform/data_models/collection.rb
- lib/bioinform/data_models/motif.rb
- lib/bioinform/data_models/pcm.rb
- lib/bioinform/data_models/pm.rb
- lib/bioinform/data_models/ppm.rb
- lib/bioinform/data_models/pwm.rb
- lib/bioinform/formatters.rb
- lib/bioinform/formatters/raw_formatter.rb
- lib/bioinform/formatters/transfac_formatter.rb
- lib/bioinform/parsers.rb
- lib/bioinform/parsers/jaspar_parser.rb
- lib/bioinform/parsers/matrix_parser.rb
- lib/bioinform/parsers/parser.rb
- lib/bioinform/parsers/splittable_parser.rb
- lib/bioinform/parsers/string_fantom_parser.rb
- lib/bioinform/parsers/string_parser.rb
- lib/bioinform/parsers/trivial_parser.rb
- lib/bioinform/parsers/yaml_parser.rb
- lib/bioinform/support.rb
- lib/bioinform/support/advanced_scan.rb
- lib/bioinform/support/array_product.rb
- lib/bioinform/support/array_zip.rb
- lib/bioinform/support/collect_hash.rb
- lib/bioinform/support/deep_dup.rb
- lib/bioinform/support/delete_many.rb
- lib/bioinform/support/inverf.rb
- lib/bioinform/support/multiline_squish.rb
- lib/bioinform/support/parameters.rb
- lib/bioinform/support/partial_sums.rb
- lib/bioinform/support/same_by.rb
- lib/bioinform/support/strip_doc.rb
- lib/bioinform/support/third_part/active_support/core_ext/array/extract_options.rb
- lib/bioinform/support/third_part/active_support/core_ext/hash/indifferent_access.rb
- lib/bioinform/support/third_part/active_support/core_ext/hash/keys.rb
- lib/bioinform/support/third_part/active_support/core_ext/module/attribute_accessors.rb
- lib/bioinform/support/third_part/active_support/core_ext/object/try.rb
- lib/bioinform/support/third_part/active_support/core_ext/string/access.rb
- lib/bioinform/support/third_part/active_support/core_ext/string/behavior.rb
- lib/bioinform/support/third_part/active_support/core_ext/string/filters.rb
- lib/bioinform/support/third_part/active_support/core_ext/string/multibyte.rb
- lib/bioinform/support/third_part/active_support/hash_with_indifferent_access.rb
- lib/bioinform/support/third_part/active_support/multibyte.rb
- lib/bioinform/support/third_part/active_support/multibyte/chars.rb
- lib/bioinform/support/third_part/active_support/multibyte/exceptions.rb
- lib/bioinform/support/third_part/active_support/multibyte/unicode.rb
- lib/bioinform/support/third_part/active_support/multibyte/utils.rb
- lib/bioinform/version.rb
- spec/cli/cli_spec.rb
- spec/cli/convert_motif_spec.rb
- spec/cli/data/merge_into_collection/GABPA_f1.pwm
- spec/cli/data/merge_into_collection/KLF4_f2.pwm
- spec/cli/data/merge_into_collection/SP1_f1.pwm
- spec/cli/data/merge_into_collection/collection.txt.result
- spec/cli/data/merge_into_collection/collection.yaml.result
- spec/cli/data/merge_into_collection/collection_pwm.yaml.result
- spec/cli/data/merge_into_collection/pwm_folder/GABPA_f1.pwm
- spec/cli/data/merge_into_collection/pwm_folder/KLF4_f2.pwm
- spec/cli/data/merge_into_collection/pwm_folder/SP1_f1.pwm
- spec/cli/data/pcm2pwm/KLF4 f2 spaced name.pcm
- spec/cli/data/pcm2pwm/KLF4_f2.pcm
- spec/cli/data/pcm2pwm/KLF4_f2.pwm.result
- spec/cli/data/pcm2pwm/SP1_f1.pcm
- spec/cli/data/pcm2pwm/SP1_f1.pwm.result
- spec/cli/data/split_motifs/GABPA_f1.mat.result
- spec/cli/data/split_motifs/KLF4_f2.mat.result
- spec/cli/data/split_motifs/SP1_f1.mat.result
- spec/cli/data/split_motifs/collection.yaml
- spec/cli/data/split_motifs/plain_collection.txt
- spec/cli/merge_into_collection_spec.rb
- spec/cli/pcm2pwm_spec.rb
- spec/cli/shared_examples/convert_motif/motif_list_empty.rb
- spec/cli/shared_examples/convert_motif/several_motifs_specified.rb
- spec/cli/shared_examples/convert_motif/single_motif_specified.rb
- spec/cli/shared_examples/convert_motif/yield_help_string.rb
- spec/cli/shared_examples/convert_motif/yield_motif_conversion_error.rb
- spec/cli/split_motifs_spec.rb
- spec/data_models/collection_spec.rb
- spec/data_models/motif_spec.rb
- spec/data_models/pcm_spec.rb
- spec/data_models/pm_spec.rb
- spec/data_models/ppm_spec.rb
- spec/data_models/pwm_spec.rb
- spec/fabricators/collection_fabricator.rb
- spec/fabricators/motif_fabricator.rb
- spec/fabricators/motif_formats_fabricator.rb
- spec/fabricators/pcm_fabricator.rb
- spec/fabricators/pm_fabricator.rb
- spec/fabricators/ppm_fabricator.rb
- spec/fabricators/pwm_fabricator.rb
- spec/parsers/parser_spec.rb
- spec/parsers/string_fantom_parser_spec.rb
- spec/parsers/string_parser_spec.rb
- spec/parsers/trivial_parser_spec.rb
- spec/parsers/yaml_parser_spec.rb
- spec/spec_helper.rb
- spec/spec_helper_source.rb
- spec/support/advanced_scan_spec.rb
- spec/support/array_product_spec.rb
- spec/support/array_zip_spec.rb
- spec/support/collect_hash_spec.rb
- spec/support/delete_many_spec.rb
- spec/support/inverf_spec.rb
- spec/support/multiline_squish_spec.rb
- spec/support/partial_sums_spec.rb
- spec/support/same_by_spec.rb
homepage: ''
licenses: []
metadata: {}
post_install_message: 
rdoc_options: []
require_paths:
- lib
required_ruby_version: !ruby/object:Gem::Requirement
  requirements:
  - - ">="
    - !ruby/object:Gem::Version
      version: '0'
required_rubygems_version: !ruby/object:Gem::Requirement
  requirements:
  - - ">="
    - !ruby/object:Gem::Version
      version: '0'
requirements: []
rubyforge_project: 
rubygems_version: 2.2.2
signing_key: 
specification_version: 4
summary: Classes for work with different input formats of positional matrices and
  IUPAC-words and making simple transform and statistics with them. Also module includes
  several useful extensions for Enumerable module like parametric map and callable
  symbols
test_files:
- spec/cli/cli_spec.rb
- spec/cli/convert_motif_spec.rb
- spec/cli/data/merge_into_collection/GABPA_f1.pwm
- spec/cli/data/merge_into_collection/KLF4_f2.pwm
- spec/cli/data/merge_into_collection/SP1_f1.pwm
- spec/cli/data/merge_into_collection/collection.txt.result
- spec/cli/data/merge_into_collection/collection.yaml.result
- spec/cli/data/merge_into_collection/collection_pwm.yaml.result
- spec/cli/data/merge_into_collection/pwm_folder/GABPA_f1.pwm
- spec/cli/data/merge_into_collection/pwm_folder/KLF4_f2.pwm
- spec/cli/data/merge_into_collection/pwm_folder/SP1_f1.pwm
- spec/cli/data/pcm2pwm/KLF4 f2 spaced name.pcm
- spec/cli/data/pcm2pwm/KLF4_f2.pcm
- spec/cli/data/pcm2pwm/KLF4_f2.pwm.result
- spec/cli/data/pcm2pwm/SP1_f1.pcm
- spec/cli/data/pcm2pwm/SP1_f1.pwm.result
- spec/cli/data/split_motifs/GABPA_f1.mat.result
- spec/cli/data/split_motifs/KLF4_f2.mat.result
- spec/cli/data/split_motifs/SP1_f1.mat.result
- spec/cli/data/split_motifs/collection.yaml
- spec/cli/data/split_motifs/plain_collection.txt
- spec/cli/merge_into_collection_spec.rb
- spec/cli/pcm2pwm_spec.rb
- spec/cli/shared_examples/convert_motif/motif_list_empty.rb
- spec/cli/shared_examples/convert_motif/several_motifs_specified.rb
- spec/cli/shared_examples/convert_motif/single_motif_specified.rb
- spec/cli/shared_examples/convert_motif/yield_help_string.rb
- spec/cli/shared_examples/convert_motif/yield_motif_conversion_error.rb
- spec/cli/split_motifs_spec.rb
- spec/data_models/collection_spec.rb
- spec/data_models/motif_spec.rb
- spec/data_models/pcm_spec.rb
- spec/data_models/pm_spec.rb
- spec/data_models/ppm_spec.rb
- spec/data_models/pwm_spec.rb
- spec/fabricators/collection_fabricator.rb
- spec/fabricators/motif_fabricator.rb
- spec/fabricators/motif_formats_fabricator.rb
- spec/fabricators/pcm_fabricator.rb
- spec/fabricators/pm_fabricator.rb
- spec/fabricators/ppm_fabricator.rb
- spec/fabricators/pwm_fabricator.rb
- spec/parsers/parser_spec.rb
- spec/parsers/string_fantom_parser_spec.rb
- spec/parsers/string_parser_spec.rb
- spec/parsers/trivial_parser_spec.rb
- spec/parsers/yaml_parser_spec.rb
- spec/spec_helper.rb
- spec/spec_helper_source.rb
- spec/support/advanced_scan_spec.rb
- spec/support/array_product_spec.rb
- spec/support/array_zip_spec.rb
- spec/support/collect_hash_spec.rb
- spec/support/delete_many_spec.rb
- spec/support/inverf_spec.rb
- spec/support/multiline_squish_spec.rb
- spec/support/partial_sums_spec.rb
- spec/support/same_by_spec.rb