bio-maf-0.2.0-java

https://rubygems.org

id: 372842

number: 0.2.0

platform: java

spec_sha256: de72e0222d07ae4a153d3df749df54bf78a807615e8b4e7b5cd4cbf61a452130

sha256: 9791f28d3c05aa2d89c249cb3315c7572281d1f208ece11672bd391db4481706

created_at: 2024-05-13 08:19:10 UTC

updated_at: 2024-06-08 01:36:39 UTC

position: 5

version_data_entries_count: 89

uploaded_at: 2012-07-09 20:08:42 UTC

indexed: true

has_extensions:

extensions:

Gem size: 378 KB

Version Data Entries

Total: 89

Unpacked size: 2.72 MB

Full Name	Mode	Size	SHA
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.yardopts	644	64 Bytes	5c3a232ae62e76df768ee852a43a4160cd14f540bd2c29c00ff7f2e0a400e51d
DEVELOPMENT.md	644	2.12 KB	24459fd08fb41c3e166607d53a9e6450b947677ecc4e0c863029b2c998de4e2c
Gemfile	644	653 Bytes	b7bf0c6881eab15b396da4c1820948223a554ca4fecb65ad924473379eef4f0a
LICENSE.txt	644	1.02 KB	99e4bfdb640f829da7e876b2932ced20df436299ed10d4501845489b4373a18f
README.md	644	9.59 KB	d3253cdd752922d84c127d99385da23679124d8afe3b859d7115ad776e4d0e20
Rakefile	644	1.87 KB	e4982172b08184abb49cdfff252f03d894feebae5113a5f5b5a3ceb383dfa334
VERSION	644	5 Bytes	6ad9613a455798d6d92e5f5f390ab4baa70596bc869ed6b17f5cdd2b28635f06
benchmarks/dispatch_bench	755	986 Bytes	c35eda9f144657c969b0a3192bf5ff131eb734365b22e5bb07ad10056bfc0790
benchmarks/iter_bench	755	1.86 KB	7839890cfea60f3f82d4a3a885308d374e6dc98d075083cea2c393122c70ee19
benchmarks/read_bench	755	671 Bytes	944ff7c801bb4fdce8172916d0ec78cd12e009a9afe99a126776ef06fe9515aa
benchmarks/sort_bench	755	482 Bytes	0191df36b979654b7d5983f28d048a6eb5eeb5c7c454465017786048b599ef6c
benchmarks/split_bench	755	738 Bytes	b79ffe03942c75d3ca6a8dccc85f9b62b8074ca0b11f94cb1aa7a253986af37b
bin/find_overlaps	755	448 Bytes	a26bf159ef56e743b4aa1d2cea69eed31f0640f175b97ae7336fd43edba3558c
bin/maf_count	755	1.87 KB	35a2d0f9f8bc2020b25b282910f834dd7f462df35a71f21da6e83a4805c49bdf
bin/maf_dump_blocks	755	559 Bytes	07b8be3506df02e49ea69b17bd72dbe73c12ea0b5e17008b5b7225c579527313
bin/maf_extract_ranges_count	755	1.03 KB	f201def4ff0abf25c42f7dab0d4ba5c5029717b57dda59608947275e3d0c2450
bin/maf_index	755	1.93 KB	a273e4837f81a21714ce6d66ee8215982e2165ab2f3ebc69c57266b9af5b8f9b
bin/maf_parse_bench	755	1.96 KB	24b954f06eaedee49b2236979d21a64eaf941757e8c1b015de1c3df6fdf73644
bin/maf_tile	755	2.79 KB	2e0dc99b2307049d41aa77a55814358f04808a80d649f44db7c1aaf4da247ebc
bin/maf_to_fasta	755	1.39 KB	4fb98d2be18e7834456f827e7b8fadd3208c17b0ba28e4fd196076fb257465f1
bin/maf_write	755	1.98 KB	3d2b401d7511675e4f8bc630f5d7c61c40931c3d1a2d4cc573c99c055b3a581a
bin/random_ranges	755	959 Bytes	9224b5e31565e5f0f67e405e035f24769908e82f084a6917774a6196f9052c99
bio-maf.gemspec	644	1.34 KB	1055ac7fe3b58cf6b06356886dc6277c9ceb46b8970248e444c110e9d5a364b3
features/gap-filling.feature	644	4.32 KB	57a635c14c99d6e9d0236bdd75bb62551fdb180e5569f6989b291ad20b7ad046
features/gap-removal.feature	644	2.22 KB	437b6f6f320bd1f046b69d3a678cce6015ff28837eb141dce1cebe3417821027
features/maf-indexing.feature	644	1.35 KB	5ce011c57fbf0770757f6e0e3f17b0fc51329259d97d00993a8198bc627fd162
features/maf-output.feature	644	1.15 KB	cded04a20043e72b243b6b70d9c1d58993701585af74fbb188ff2aef3b4c8510
features/maf-parsing.feature	644	1.56 KB	8542f657817ad4a5e9818cb290b6768a248481a56f6e4df02197a42fa166bf14
features/maf-querying.feature	644	3.38 KB	9f539ab58f6cc0f1efedc980fd2d200c024238c35b6db4c3fccf4ca4cae8b528
test/data/empty	644	0 Bytes	e3b0c44298fc1c149afbf4c8996fb92427ae41e4649b934ca495991b7852b855
features/maf-to-fasta.feature	644	1.28 KB	f15f3f5ce5aa11081b6794431d5e00a89d49ba1af1905bf44c149787a8309876
features/step_definitions/convert_steps.rb	644	958 Bytes	bbe0c2c696e944174294d6853fa8360743a9853436c4d2c0935fc1cf96d551ee
features/step_definitions/gap-filling_steps.rb	644	969 Bytes	d8e27d1b3b9c4cc057a23423af865de85ee3e9435f7910d02ffe3c01cebb62da
features/step_definitions/gap_removal_steps.rb	644	554 Bytes	d9c16c71bb0de25a390e91b2670beb5923e843e4ed3dd7309963e4ac4be13c04
features/step_definitions/index_steps.rb	644	651 Bytes	25d560a029aa0724071841140b945334b755617397f31a9760d5711099e6e5d4
features/step_definitions/output_steps.rb	644	775 Bytes	2bda26d3b2db837731b196ec1cbe9ddb722ff34cc7b4663acca5bc799ccb13ee
features/step_definitions/parse_steps.rb	644	1.99 KB	b95a9277d2e7748ab374bb6190662609f35ea645aa5003db60ee5232073201df
features/step_definitions/query_steps.rb	644	952 Bytes	9645446b872c0f3558b4a8e88ae2fb049666573b0e472ba011b22e029dde2382
features/step_definitions/ucsc_bin_steps.rb	644	361 Bytes	aabfc01b4eb788ae380d7fe235cac921fe4ebb918ed634e671549806291f21c6
features/support/env.rb	644	338 Bytes	2d5d7384f52ebae9c105de8b99a091a0a603cb318ba20b6ba8e59251ff664725
features/ucsc-bins.feature	644	901 Bytes	80f98e810542524e74d62158ad1e91b570338f3b69a527d51afe3f52d65fe9c6
lib/bio-maf.rb	644	353 Bytes	23a8fe7a423a81379c05efb1b81bcfbf71ef60170b1fa033785adb2fb623107a
lib/bio-maf/maf.rb	644	19 Bytes	72b05e4fbcc6bbb0f5947e9b040a0bb0ed459f02b49303c9ae4edbbc4a9251ff
lib/bio/maf.rb	644	145 Bytes	ba689b9347774cf333d37469b7f159147d469250a65d85452b79d3a2e9c99b9b
lib/bio/maf/index.rb	644	19.5 KB	e27f372364ca15ca448270faf25ab2096db744813114a8c9273902903c4e6210
lib/bio/maf/maf.rb	644	7.34 KB	fc2b270dd135f7ac6a2b720aeb409d9cc7b3cc035cd94bd86bab15c89e06d685
lib/bio/maf/parser.rb	644	24.6 KB	a526332fc21c56bff5a4f7f2c15dc96161ac5b0292575de47862f95782012ca0
lib/bio/maf/struct.rb	644	1.42 KB	3276edb1ff5cbe6374a22b12214864084d86daf00f3a637320828c901e78c4e6
lib/bio/maf/tiler.rb	644	4.33 KB	56e04a083e09eb3bbd69dbbd30a414f4b11d1f8c2fd4912d4eeae6e4dab6c845
lib/bio/maf/writer.rb	644	1.47 KB	ddb36e40968abb2509a6f97ce4a163adcd8a3741e5522696e5064191857654ea
lib/bio/ucsc.rb	644	68 Bytes	e41b555fc2a4b56262ad4c5681bc0c1b87c0a0520c462c9227f7e9a19ee2677d
lib/bio/ucsc/genomic-interval-bin.rb	644	248 Bytes	40d89e3260949c9b63e671af3d69bcfbd4db792960ab60805b0bdf4a807468a1
lib/bio/ucsc/ucsc_bin.rb	644	4.09 KB	7d21b2f1c6222d59f4e4307cc3e672dbbb2a4e0d29351f4d324179a51bfe1c29
man/.gitignore	644	7 Bytes	d602bbe856ef80e101210868601c19d9f27ab76e0994b2437e711542d8cbe835
man/maf_index.1	644	2.3 KB	f9d170101585b97058dbfb121a64e1f37da9a59f53ab7b1a86438b88a46e1706
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man/maf_index.1.ronn	644	1.93 KB	8c40154f6d254cc5bb1ccc7bd4bff31411b2bf1873a1403b3bf67367a9cc9a79
man/maf_tile.1	644	3.77 KB	79bc12ead6d5a7c700fb6e29e923a47466a130ad9dd6fd88fe4d07f6e454de59
man/maf_tile.1.ronn	644	3.34 KB	812d2a01201d480904dc49f453aedc91e11a763a5ab885f589b8f434e3228d62
man/maf_to_fasta.1	644	1.29 KB	c35b7d960cb8fb17e4f059212370fe6752a05d57d66e114d093c89ef48c43bc4
man/maf_to_fasta.1.ronn	644	1.04 KB	0f57a8583f227a842f575fddb01598bcc5f928e4448a04d1659fb566dd95a388
spec/bio/maf/index_spec.rb	644	12.6 KB	b01504ef4179123d699a06140175c53cff267e04e1a526ae9a20ddcb949d4263
spec/bio/maf/parser_spec.rb	644	14.4 KB	390ace3f867666032581eec82dd4c3969a368940fe5a4650ffa5ff3a530bfaa8
spec/bio/maf/struct_spec.rb	644	2.17 KB	135bcb432fbf0c4e2a777e4992f59b0d969ac582cca99c3d0fcabe0a3ebc86f9
spec/bio/maf/tiler_spec.rb	644	1.81 KB	f0216bc1c98a243690b064d4e09cafda5c8496bc2e585cfad4dce34c2c60ad35
spec/spec_helper.rb	644	293 Bytes	8ef8d5e58218c9ba7833bc443b1c49b903691bde567e526bffe218f4493879a0
test/data/big-block.maf	644	2.14 MB	58c21d752c6fcea3a6b2e4bc138993f9633e58c2646b3860fb94af00aae6b40d
test/data/chr22_ieq.maf	644	697 Bytes	ba1020c6c5e06512527ef97ba1922b49ebb76425445541927554f5e0faa688a8
test/data/chrY-1block.maf	644	549 Bytes	244556ea3e11ab81338f2cdffe8289522b4897650715b20b93865c5e59b06e7d
test/data/empty.db	644	8 KB	f5978ae42a9cff262db4174cdf821712e14bab33671959c6754644b49826f9a1
test/data/gap-sp1.fa	644	66 Bytes	ce9657b7c56c78c131fbc397eeb312998797086e8fd41a031de28c7384f5e58a
test/data/mm8_chr7_tiny.kct	644	392 KB	ddcd79d926bd19c3ed53b85b25970b6310ef0de69bfa7c56bc0dca49e0db2306
test/data/mm8_chr7_tiny.maf	644	10.3 KB	521278cd0e7a7ea942e2429a065601c5632e86d45747a0a9204586583ee3af75
test/data/mm8_mod_a.maf	644	565 Bytes	032532c28d5f802e976a1ffcef4b3edef268f172a4ab5617eb1b2bdca36fdaea
test/data/mm8_single.maf	644	1.08 KB	c650e5fcfb8aca9e92300260d9e5aeabb30171d1772c9c91da6f1cb319c9c09f
test/data/mm8_subset_a.maf	644	2.94 KB	b0d820492664ff04217390525ced0fc453ef6a4774d8dc3300b97161b4873d94
test/data/t1-bad1.maf	644	428 Bytes	bb17b90443b2efb1af16d1920d3dc7a90f231276cae3851be0a1f7a4db2f75b2
test/data/t1.fasta	644	176 Bytes	6060b8c9f3fe183fde1a06e96a34440b7bf643579584e3dc60eceb4baec47ff2
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test/data/t1a.maf	644	439 Bytes	fe3459779fd246c7ffe5742edcc88de96ec9de3a88a52d586cbf80ae5ad2f5ec
test/helper.rb	644	428 Bytes	b09d1a669780f1b5983227b8bfad5783a58bc9bc01de5ea1047576e3944e305c
test/test_bio-maf.rb	644	222 Bytes	980977c100772f34cd7cf019a2e90a1be8947a4bf9cee4b62072c7a28731713d
travis-ci/install_kc	755	350 Bytes	42464ae17a3c48b0c9a2e50ef46eecdd93265c7870e61a962493f0436579a2b7
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