mspire-0.3.1

https://rubygems.org

id: 37303

number: 0.3.1

platform: ruby

spec_sha256: e655146197b6e2f4955084c58815cfb9385cca0e10bf26630731ea6a0569e62f

sha256: 70965009efc694246babd21b264863830bce0265c68b4d8485b59145a992abae

created_at: 2024-05-13 08:14:16 UTC

updated_at: 2024-05-29 23:44:36 UTC

position: 63

version_data_entries_count: 223

uploaded_at: 2009-07-25 18:06:18 UTC

indexed: true

has_extensions:

extensions:

Gem size: 2.79 MB

Version Data Entries

Total: 223

Unpacked size: 8.41 MB

Full Name	Mode	Size	SHA
test_files/phobius.small.noheader.txt	644	2.46 KB	b37b45568b5cb0825506e77f00ee011c9b0404fd1662557ed34645ab0c5ae192
test_files/bioworks_small.phobius	644	5.97 KB	6857a414ab422f7a57016353bd1c71d1f8de604b8ffc66a2509b06ce60748459
INSTALL	644	1.45 KB	31fc112988cf5bb3579de9c6bdb629382f7f6d768a35ef2fa9b0a90ca19c43af
README	644	1.98 KB	4c10a3ae9437c10d0801197c944a34ecae0cbaa9f6b89aa22fac66cd95dca657
lib/spec_id_xml.rb	644	2.65 KB	d254f5df5a3d3068d9c7c6b49aee6cc43c163405a164d5f5c37fab0b43f8d1c1
lib/bsearch.rb	644	3.14 KB	5ecfcf476f29c902b7e142e564845ad145da2183684627bfb03a505284dc75fa
lib/spec_id/precision/prob/output.rb	644	2.36 KB	a2e0f7c31cb15b487bb9095c4d9621f1b94e55c09f069cd404d4f8fa621c4a82
lib/ms/msrun_index.rb	644	2.9 KB	aa0587b0bdb2130cb1ac9d7c6153a643d1f0ffe00be153417f822d4112cdd336
lib/ms/parser/mzxml.rb	644	5.07 KB	faad3036fe0f3c2fb784ed903ab41fc2e8f34ccbde3649007fadac98984c8a60
lib/ms/parser/mzxml/dom.rb	644	4.57 KB	7e56366e7d14746affdf9c7b8c0b1a34c6a05640d147fc5694dfdae99d0c5b50
lib/validator/bias.rb	644	3.04 KB	9cfd60eb9850db25823213c483f55abde1d34c66f7ad39b2bc8d6a82766eac8c
bin/protxml2prots_peps.rb	644	773 Bytes	7a32b263193a3f5b8926930e25ad98d0830fa466888dd4252559530a47825cf9
script/genuine_tps_and_probs.rb	644	3.32 KB	87a6cd09ee3ad395929c3024d14a0222ebc5495b2965ad50a83717aed05a1b4b
script/get_apex_values_rexml.rb	644	958 Bytes	344f11baa03f4894a65769970c1a23e0ba0d1c707db227012c9ce1f2c2f2243b
specs/ms/gradient_program_spec.rb	644	2.73 KB	887f3f05926833927fbc5af1cc7c7201aeb61dad2c7f07dde370e9ac6dd5ca4a
specs/validator/prot_from_pep_spec.rb	644	5.49 KB	22368d0182ce54d31018367c6a346d97af8513d27deecacaba8529c481db117a
specs/spec_id/sequest/pepxml_spec.rb	644	17.7 KB	61ad826de38d39d4044ae6c2d5cb9f167213e66f0bc7f1efecf6920ec47421a9
test_files/small.fasta	644	19.7 KB	b7b34f32101f532e367d6f7dc24633d8d0e991bbe0644da81e92b45f7cfafbb0
test_files/tf_bioworks2excel.txt.actual	644	95.9 KB	f269ddae5deaaf72bda3f57cc4c145ed4e50a46453c83fdeae713adfa405f97b
test_files/bioworks_small.xml	644	139 KB	bf8d7b52992035426d94bfd4815e54e961c57a2850bf9e38d808a1135205a8ee
Rakefile	644	8.05 KB	36b057ddcb32b63560563fabf4ba3f394ba7141514a70355c36e1d44daa5c754
LICENSE	644	1.74 KB	49ec5bb405e973c72366fcfb3ab81f4afc5fe4f0c4664420840528d79f545666
changelog.txt	644	4.08 KB	3ae656ace06c050ce870b9ddbfdee23839f03820943b8314cd68d08415d7b89a
release_notes.txt	644	2 Bytes	75a11da44c802486bc6f65640aa48a730f0f684c5c07a42ba3cd1735eb3fb070
lib/spec_id.rb	644	21.5 KB	67d704e01c238f62735242bf1789039c572d10f88b7e107804cb935dc33ca7db
lib/fasta.rb	644	16.1 KB	c31edd25d0dac428e9136289f7ea1bcb375a7d65c8108a3884229e17bcb7a663
lib/align.rb	644	5.36 KB	fadda81bcdf5b2b6624d50aa4aee300c7e66ed6873ebeb8fff43b94624d2a9d9
lib/sample_enzyme.rb	644	2.95 KB	ec7800e3805a7b94d83cccea8e0b8abb77db86b01b56bb6aff69835ceeae3ba8
lib/gi.rb	644	3.15 KB	6ffcf981c902d3cf698fca6a92a8da4562fe667b2dfd279eba37cd74d87352a2
lib/roc.rb	644	5.11 KB	aa4df977aec7f6d5e8f86bc15489132a86d795b7985c006408a638fe648c13e6
lib/validator.rb	644	6.94 KB	140d4eca8d5fb5da0ec0df8b0d9f3e02a0141b5853fb03680dd41270c59aa058
lib/transmem.rb	644	4.77 KB	147ce2216b5b0b5b31a16de07943fcb6d2d9114cc36d629b2b2ab4d4ea25e0d0
lib/xml_style_parser.rb	644	3.07 KB	4c97768e8913bf84908364d4022c21ea8e27be93b0f16bc147560038b5ffacbd
lib/xmlparser_wrapper.rb	644	501 Bytes	f47d9327035a1110f4bdb158a5178f9e86279045bc26d62b6e3bdb29e839f55f
lib/group_by.rb	644	189 Bytes	806d63e53dbb741c339c21d9d17a81dda580f10babc1b01a3d0e223636e3920d
lib/xml.rb	644	949 Bytes	48fc387fec64a61c02cbcad75523cce096907ced8bc2dc33cbd44e6cc6a9c001
lib/merge_deep.rb	644	459 Bytes	a52f822b84a5d55ba6693cf32932a8019a92a1bacbd62157b10789d7db807dac
lib/index_by.rb	644	172 Bytes	a1936c02421b45c057db3848892f1d5476145ca1fc84df285e32e4c09fddc82e
lib/mspire.rb	644	39 Bytes	d8a2626f4d70691ebeb39bfc33137143b64e9f37ccbd3e4325ec92c020680879
lib/scan_i.rb	644	367 Bytes	baa675e6ae1c424ce17f8ab518147578771f0b5d80be5e3dd0146355c075c567
lib/spec_id/proph.rb	644	77 Bytes	620225cafb940ccf095b8ddf60dc1da39fe25ff4c1500f3e22d538a3188a24b4
lib/spec_id/srf.rb	644	24.6 KB	e18666c22f4e443fd42f3e565eaa1e1dbe9170a37123ec0d58d7b71c6399aa10
lib/spec_id/aa_freqs.rb	644	4.85 KB	32e13d94224d909c4cc50b90b7bda206e3871cbb86e156e861104c6585f5cd21
lib/spec_id/protein_summary.rb	644	15.8 KB	6ce60eb5b32e7636a631364e4a152b657fdbb946b29a3367189463a8024989d8
lib/spec_id/digestor.rb	644	4.96 KB	08ec7ee923314689da4dc4afc8f94a049a209c1e11fca946401bfb852e850ed2
lib/spec_id/mass.rb	644	2.86 KB	250b3d05ed5e7f6b3fac9312fcb65f0ae7b0610ff5329022bcc41a5376da582b
lib/spec_id/precision/prob.rb	644	5.65 KB	68522049548c7943ec04ff25843776b1063385271baf349ec07a004d2d6247a1
lib/spec_id/precision/filter.rb	644	20.8 KB	8ac3f2384c6a771803423d4ada7939fa4a75fad034a73e4d1c212bc34fe4dc27
lib/spec_id/precision/output.rb	644	1.25 KB	7a97c5cfae63b6ae888b66c5591d80b22cd58292938a09223390a785b7ff31ec
lib/spec_id/precision/prob/cmdline.rb	644	5.17 KB	8653b3a2b91c78fb50b14b3298548ade2a01152d351d9b744667ce2110409d7d
lib/spec_id/proph/pep_summary.rb	644	2.25 KB	50fb87f6e75b10b8a527a8d93be18890238f5efcf9cb9219382edea4f6a8e072
lib/spec_id/proph/prot_summary.rb	644	14.3 KB	2e8797726db2263bed94a90910d1f87b5446c1df35a87aa5aefe69dec9855a05
lib/spec_id/sequest/params.rb	644	8.4 KB	76c4137fe328e64354f14aed6681956811b4ca2e5afaec555a76cc9692fa9eb7
lib/spec_id/sequest/pepxml.rb	644	51.1 KB	5e66b4b9f5524f4bcd226fa8a1d49faecaf8a7a405a604424753e253eeab22f4
lib/align/chams.rb	644	1.95 KB	c373053e0fee5e649d8e64657ff0950e72e7ce7bd52b39c590fd69080102a499
lib/ms/spectrum.rb	644	4.74 KB	e7b42196ebf8cfa9e30148c25795371a0ae7f948efdb48bdac72170da202bad8
lib/ms/gradient_program.rb	644	5.84 KB	0732db18ce9cd05e4836db9b7e819233f17e9ff16cd5ca01c18733990ad6587d
lib/ms/scan.rb	644	2.14 KB	f799be3b6cee5b031b388412ce98e9eef43d2da0fe8e93c1f37d4822e8d1114b
lib/ms/parser.rb	644	3.07 KB	61b2af3b44960bc5b5f8a1fc7670dc942ca6c2db54f22727ae19e1836a4f0b80
lib/ms/converter/mzxml.rb	644	2.11 KB	0774f0a98be52bb9b434ed65cd68203c87a498a96110a78725e8e75f6960bcab
lib/ms/parser/mzdata/axml.rb	644	168 Bytes	324c778493dedadcb3c345c7a0b7e46e4bbf007621d6052ce6ee2106c54787bf
lib/ms/parser/mzdata/dom.rb	644	5.31 KB	e10446c88435357227d95f0e9ca62371bb1b2ddb8ada0f6a629e4bf95326d7b7
lib/ms/parser/mzxml/xmlparser.rb	644	5.22 KB	4c12bece5ebcdd479d4a5a6784652144f1dce2be94a4ebb5c7ee4dc505f95660
lib/ms/parser/mzxml/libxml.rb	644	262 Bytes	e282a29fbc7a2d61ab65dcb6a981f66d88086f056632c766d9eee974c7b47a71
lib/ms/parser/mzxml/regexp.rb	644	2.93 KB	fb6064289372f025176e40529f0090d13938c9b3acdd9ab534da4ea8c9791d70
lib/ms/parser/mzxml/axml.rb	644	232 Bytes	d8a103a03d0d27f974a1052809759edb161883856cb78773c1ccddf1b641b93c
lib/ms/parser/mzxml/hpricot.rb	644	6.87 KB	cb58d462b6ae3c2144d3d6716c2a01838871500d1418617910c999f4a2eb9d5a
lib/transmem/phobius.rb	644	3.34 KB	3c025422cb97abdd3605c08b26f806f7a58cd0ffd7eb5880ab88518fcbafe010
lib/validator/prot_from_pep.rb	644	9 KB	d7005a5d6ba9a0f97146e65cdceff3cb47bb16a5192f68bbd3cf6f5fd5bec14d
lib/validator/true_pos.rb	644	1.15 KB	46cc36d4036111fd6311f9cb2c9571df5a05373119978ffffb24793169e243ff
lib/validator/aa.rb	644	5.07 KB	393f3d5fa21f36cbc1e7e1e4c360b46c3225a3f86bff2f5bd25c83ffca350e4d
lib/validator/transmem.rb	644	8.87 KB	945065227d3b4920b0b7fd28da7ba684928d0596c1716b83c01844a18e9ba859
lib/validator/cmdline.rb	644	10.6 KB	b706c0b8360f6f0afa644a5a186fc681f360e482fa106933d488fe4b5d19b6f6
lib/validator/background.rb	644	1.87 KB	edc2825a8d335aa2214c5b06a8fcadab83f9acdde2d1979cd708284971dd2174
lib/validator/probability.rb	644	1.17 KB	4636e663bfcd3cf148283246ae122dff5c8924d4c7ffee8dfdeb6af953391a99
bin/bioworks_to_pepxml_gui.rb	644	5.55 KB	a5f3b45f4a008f62f1a57592c4f81bae550b762a6dcd6d860ad484178fe9e8e0
bin/gi2annot.rb	644	216 Bytes	9d3ec4d3a35ebb9ec4c113ac83becb2c5e11d488954fb2cace467b74e1d65164
bin/protein_summary.rb	644	111 Bytes	86b6bdbd6bd16a029a9625018c356bfb66bb7a9552b9a3571b5201eca68283b1
bin/aafreqs.rb	644	407 Bytes	72f9966835dafc1f87a99574e0025f142014656cf52ca50a40d20b9f695bb04c
bin/bioworks2excel.rb	644	250 Bytes	0543ab11b5b77a95233e7367f9ae9087adc76f826850ebcea6ebfcdbd25be05a
bin/pepproph_filter.rb	644	478 Bytes	88f071310479f70c3e4e5580f10efadb56a70a54b0675110e66047d9a12cd2d3
bin/fasta_shaker.rb	644	68 Bytes	f900ec32a8d691a49e2b059f85ae1a0bcae3475c5923dc3accd47bcea4af88d6
bin/id_precision.rb	644	4.08 KB	08faf0ae9c9fe0ebde230cf985696209e7ea28519f34ac10d17a04419664e9e5
bin/id_class_anal.rb	644	2.92 KB	d268574c18d9e1f39152753bd57a0252fae62bd33a344a2bf6ae7a8ecd4b1273
bin/prob_validate.rb	644	116 Bytes	8add5bc58593faccec098098ef2fc1a21c27c4e86b9ccaa76a2cd12a3471f55c
bin/srf_to_sqt.rb	644	1.52 KB	43a32ec1b18a3c41e9fd04d63158344917949b5f94cf0eb4563f83285cc63a1d
bin/filter_and_validate.rb	644	117 Bytes	4545736c49b1dd40c67d26da2f2f527443ec4b9a35460c1b530c37bbbc8a448b
bin/srf_group.rb	644	608 Bytes	61553508cfcdb8cb1c2e9276958835d03888d4336ced4baa6db1758effae9569
bin/raw_to_mzXML.rb	644	1.35 KB	1da65dbd8ed0e3612832aed3137548eb45a49d0e99b8e509ab06812ce02e282a
script/create_little_pepxml.rb	644	1.17 KB	90a1c48e7e54e39f85697025f4794ee619b93aa65a76d5439fbe089f094537b4
script/mzXML2timeIndex.rb	644	601 Bytes	57eff7efa0696e17a6556394f94cb37da4c019a77b86db878b358010b5f6b3c8
script/tpp_installer.rb	644	7.78 KB	bef1c17c952b789c66ff0175ef9c6669203ee80f80a57dfb5f7b78353fcd3801
script/msvis.rb	644	800 Bytes	5bf259d2df075bc27077ee5cf1143dcffa10c142e11197d7768d328ca8be681f
script/histogram_probs.rb	644	1.58 KB	6f885155b7ec7f5c6977622f433784432d1fcb7031d1c0bbc4bd122d6ba995d0
script/top_hit_per_scan.rb	644	1.79 KB	ac2f9326c5c1d300c869eaa1e6eeb6eb0e085e9f4a6f13218a6dde26ef989ba4
script/compile_and_plot_smriti_final.rb	644	1.99 KB	60368319fa92fa59599d09a903f61568bde9f2a1932d84f34fb123d467a93d36
script/simple_protein_digestion.rb	644	752 Bytes	0c4578001b1e6f1cb0491d7a6e116f8167db8e4e81f7e01b5a8dbeeb2dd0f199
script/estimate_fpr_by_cysteine.rb	644	6 KB	566b5cf081369fbdbba3c306e288dc6d5600f9b74060aa638352fe50ae860a3c
script/find_cysteine_background.rb	644	3.46 KB	ca552b5f627934899cc2692d767665600bc6b88a7a8819ec1e83ec1a92ececb1
script/degenerate_peptides.rb	644	1.2 KB	e96ec7c0057eb846e00f7ce4b476237baf3c85e7fea0c5459e031e35d69ea98b
script/smriti_final_analysis.rb	644	2.52 KB	10314c366a1152af6549ba10c8fc6f828408c46a04771922a3b69d12965a8da3
script/toppred_to_yaml.rb	644	1.3 KB	a5e5113933660c74d726d531f995f99b09fb17d4807c23803099b4f0488978e9
script/extract_gradient_programs.rb	644	1.18 KB	c9edcac55cf84caecca00862f94670922dff97efa2bac5bddd39997ba4ff2d16
specs/transmem_spec.rb	644	1.96 KB	f069b53b0a610362bc9683abe7e7d4b9effff32106ddf2b85a6ce7f30a0e7497
specs/roc_spec.rb	644	7.72 KB	c53a3d9ee04c3cbdcbb0e5810abf9ebc276814796b6429f9aca04399175858f7
specs/load_bin_path.rb	644	243 Bytes	b21b5c0383eb8a5c55360134c681cb676d0f47b121c74f141ea9ff21abd84c55
specs/fasta_spec.rb	644	10.6 KB	9a20e99a657350898ab359ce6a0364c301c223312e5247e37f2e023529964d02
specs/gi_spec.rb	644	492 Bytes	d118f400d738ac3442dff89374666e8a7d45076570f2011657f8667d01970cf3
specs/validator_helper.rb	644	855 Bytes	3b087153a3ca60d4321c521b897f991f579d60a250627ec16abfcd8d172bda6f
specs/merge_deep_spec.rb	644	308 Bytes	0ebcc7feda01d5695c71d4456b679963a6efb0e027cf057a9e68eb4b12f904d2
specs/spec_id_spec.rb	644	11.1 KB	5ad27b3f29b36190ed695c95c46f242ba9049f136590a2171e5598a1ab2bc081
specs/align_spec.rb	644	2.29 KB	c15924e0a73098b2b8d0e9770ac7f2c1c31f35bb566f1555d6651b50e8463ea3
specs/rspec_autotest.rb	644	4.69 KB	e1c32af995a458e1ea0c2f65a5a22ea8d875a1f49b4702f5317403fc6770ee00
specs/sample_enzyme_spec.rb	644	1.23 KB	45b6f4f2b59cca49c3d72324ce695fc287bf7d777d8ee238dad071e9b68f88a6
specs/spec_id_xml_spec.rb	644	891 Bytes	f203b5beca3f356223c0576f645bb1627b141238a66bd552f8373901ec20a7ff
specs/transmem_spec_shared.rb	644	1.36 KB	f7a7061775ef197cf5760c385c6befabea7604e66c76f415994c316d9580f5c4
specs/ms/msrun_spec.rb	644	13 KB	ba11420d6840d38cf1ede85c2397f6440f8ccd092c1a84413f7d805f0aa0264c
specs/ms/parser_spec.rb	644	2.86 KB	7cf6af30a09a488b929df3a5162b37da261867e6476bcb34859bac552600e62a
specs/validator/background_spec.rb	644	11.5 KB	5add1fbdcaaa05b9be7b983ffd986a18489ec46c9d66bb965d8aa62681b29890
specs/validator/decoy_spec.rb	644	1.78 KB	fba6a5e6327a75f8c42de849c32728b53ca0a91f51b12e434b37fbbd43814373
specs/validator/transmem_spec.rb	644	5.58 KB	59769966b72b58c92bb48b15115e00397fd0029bff023c8504075ac65529f5a2
specs/validator/true_pos_spec.rb	644	1.65 KB	db318a751f50d6983215c2c938dd888eea729d14850518800c615b42359d0962
specs/validator/aa_spec.rb	644	3.44 KB	f775bb7dc3cdab62b1d7ce1bc29a7f07694dfa1ac448f98c3b07c5a3fa3d7b3e
specs/validator/fasta_helper.rb	644	6.72 KB	7e9c14eb47621a36711f7640f4ed3626f4464cfaddc145adc9740338f0363575
specs/validator/bias_spec.rb	644	5.86 KB	884f969ae832eed6901dcf6c8de2e4cbf8cff9df5081bda4e5fe524b69df32a1
specs/transmem/toppred_spec.rb	644	17 KB	caa590660a81c0094fcb45b826ec40f91398074adad3152f90723da19ed1371c
specs/transmem/phobius_spec.rb	644	12.8 KB	0f6eefc3f601de7e98065ae83976b17eac6a69e5f4e84fe0f0cae60f1544c3f2
specs/spec_id/bioworks_spec.rb	644	4.87 KB	d24b0096372732bebc35c1ce80561bf74ba9135ec2d0168832fa4c5d238b3d7c
specs/spec_id/aa_freqs_spec.rb	644	2 KB	06cfd84a24b399016b81ebc7386572b98b0e3691a8638f976446ced5780a7b45
specs/spec_id/srf_spec.rb	644	6.27 KB	455ab826321556765baea31f952eb4711f6f80dc345079070ce1b08ae80b064f
specs/spec_id/srf_spec_helper.rb	644	15.2 KB	1c0cf7866f61a3348c2b15f246737356705cab48d6588c503f9e16e7b14fd454
specs/spec_id/protein_summary_spec.rb	644	6.64 KB	a6c4ec510f9695df43b50a480a8309545bba35294c07faef80865e786ac0a19b
specs/spec_id/sqt_spec.rb	644	4.21 KB	12a3eeb9c8ad11657a93e7a2ce9c97beba822b4e38d696696a060ef6ad19e9bb
specs/spec_id/precision/prob_spec.rb	644	4.89 KB	65d733b386f2150e048f94fefb1384d2c52ea3e55861331a091b8e9e50dbf947
specs/spec_id/precision/filter/output_spec.rb	644	1 KB	6b4fde90cd5eee3f7993aed05e0495ffe27399d40eba3e5db7863c776bc3a775
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