Manifest.toml

[[Arpack]]
deps = ["BinaryProvider", "Libdl", "LinearAlgebra", "Random", "SparseArrays", "Test"]
git-tree-sha1 = "1ce1ce9984683f0b6a587d5bdbc688ecb480096f"
uuid = "7d9fca2a-8960-54d3-9f78-7d1dccf2cb97"
version = "0.3.0"

[[Automa]]
deps = ["DataStructures", "Printf", "Test", "TranscodingStreams"]
git-tree-sha1 = "1b1defa8b36d44dd22c715b5c884c8f795eea7fe"
uuid = "67c07d97-cdcb-5c2c-af73-a7f9c32a568b"
version = "0.7.0"

[[BGZFStreams]]
deps = ["CodecZlib", "Test"]
git-tree-sha1 = "b0e322aef9f1895a09a0c48a118111fd509f666a"
uuid = "28d598bf-9b8f-59f1-b38c-5a06b4a0f5e6"
version = "0.3.0"

[[Base64]]
uuid = "2a0f44e3-6c83-55bd-87e4-b1978d98bd5f"

[[BenchmarkTools]]
deps = ["JSON", "Printf", "Statistics", "Test"]
git-tree-sha1 = "e686f1754227e4748259f400839b83a1e8773e02"
uuid = "6e4b80f9-dd63-53aa-95a3-0cdb28fa8baf"
version = "0.4.1"

[[BinDeps]]
deps = ["Compat", "Libdl", "SHA", "URIParser"]
git-tree-sha1 = "12093ca6cdd0ee547c39b1870e0c9c3f154d9ca9"
uuid = "9e28174c-4ba2-5203-b857-d8d62c4213ee"
version = "0.8.10"

[[BinaryProvider]]
deps = ["Libdl", "Pkg", "SHA", "Test"]
git-tree-sha1 = "055eb2690182ebc31087859c3dd8598371d3ef9e"
uuid = "b99e7846-7c00-51b0-8f62-c81ae34c0232"
version = "0.5.3"

[[BioAlignments]]
deps = ["Automa", "BGZFStreams", "BioCore", "BioSequences", "BioSymbols", "BufferedStreams", "GenomicFeatures", "IntervalTrees", "LinearAlgebra", "Printf", "Test"]
git-tree-sha1 = "b6f2fc06b7c20d7c0538ddb99bd593cd8b4bd6dc"
uuid = "00701ae9-d1dc-5365-b64a-a3a3ebf5695e"
version = "1.0.0"

[[BioCore]]
deps = ["Automa", "BufferedStreams", "YAML"]
git-tree-sha1 = "476edbf4ef94594fff430a84ca96f86cb2327a71"
uuid = "37cfa864-2cd6-5c12-ad9e-b6597d696c81"
version = "2.0.5"

[[BioSequences]]
deps = ["Automa", "BioCore", "BioSymbols", "BufferedStreams", "Combinatorics", "IndexableBitVectors", "IntervalTrees", "LinearAlgebra", "Printf", "Random", "Test", "Twiddle"]
git-tree-sha1 = "29341326bfab7ebef261dab128874b9e3fece5c2"
uuid = "7e6ae17a-c86d-528c-b3b9-7f778a29fe59"
version = "1.1.0"

[[BioSymbols]]
deps = ["Automa", "Test"]
git-tree-sha1 = "36bd8fc32e02b60dba123d5eecc7b4a90ef7d265"
uuid = "3c28c6f8-a34d-59c4-9654-267d177fcfa9"
version = "3.1.0"

[[BufferedStreams]]
deps = ["Compat", "Test"]
git-tree-sha1 = "5d55b9486590fdda5905c275bb21ce1f0754020f"
uuid = "e1450e63-4bb3-523b-b2a4-4ffa8c0fd77d"
version = "1.0.0"

[[CSV]]
deps = ["CategoricalArrays", "DataFrames", "DataStreams", "Dates", "Mmap", "Parsers", "Profile", "Random", "Tables", "Test", "Unicode", "WeakRefStrings"]
git-tree-sha1 = "b92c6f626a044cc9619156d54994b94084d40abe"
uuid = "336ed68f-0bac-5ca0-87d4-7b16caf5d00b"
version = "0.4.3"

[[Calculus]]
deps = ["Compat"]
git-tree-sha1 = "f60954495a7afcee4136f78d1d60350abd37a409"
uuid = "49dc2e85-a5d0-5ad3-a950-438e2897f1b9"
version = "0.4.1"

[[CategoricalArrays]]
deps = ["Compat", "Future", "Missings", "Printf", "Reexport", "Requires"]
git-tree-sha1 = "94d16e77dfacc59f6d6c1361866906dbb65b6f6b"
uuid = "324d7699-5711-5eae-9e2f-1d82baa6b597"
version = "0.5.2"

[[CodecZlib]]
deps = ["BinaryProvider", "Libdl", "Test", "TranscodingStreams"]
git-tree-sha1 = "e3df104c84dfc108f0ca203fd7f5bbdc98641ae9"
uuid = "944b1d66-785c-5afd-91f1-9de20f533193"
version = "0.5.1"

[[Codecs]]
deps = ["Test"]
git-tree-sha1 = "70885e5e038cba1c4c17a84ad6c40756e10a4fb5"
uuid = "19ecbf4d-ef7c-5e4b-b54a-0a0ff23c5aed"
version = "0.5.0"

[[ColorTypes]]
deps = ["FixedPointNumbers", "Random", "Test"]
git-tree-sha1 = "f73b0e10f2a5756de7019818a41654686da06b09"
uuid = "3da002f7-5984-5a60-b8a6-cbb66c0b333f"
version = "0.7.5"

[[Combinatorics]]
deps = ["LinearAlgebra", "Polynomials", "Test"]
git-tree-sha1 = "50b3ae4d643dc27eaff69fb6be06ee094d5500c9"
uuid = "861a8166-3701-5b0c-9a16-15d98fcdc6aa"
version = "0.7.0"

[[CommonSubexpressions]]
deps = ["Test"]
git-tree-sha1 = "efdaf19ab11c7889334ca247ff4c9f7c322817b0"
uuid = "bbf7d656-a473-5ed7-a52c-81e309532950"
version = "0.2.0"

[[Compat]]
deps = ["Base64", "Dates", "DelimitedFiles", "Distributed", "InteractiveUtils", "LibGit2", "Libdl", "LinearAlgebra", "Markdown", "Mmap", "Pkg", "Printf", "REPL", "Random", "Serialization", "SharedArrays", "Sockets", "SparseArrays", "Statistics", "Test", "UUIDs", "Unicode"]
git-tree-sha1 = "49269e311ffe11ac5b334681d212329002a9832a"
uuid = "34da2185-b29b-5c13-b0c7-acf172513d20"
version = "1.5.1"

[[DataFrames]]
deps = ["CategoricalArrays", "CodecZlib", "Compat", "DataStreams", "Dates", "InteractiveUtils", "IteratorInterfaceExtensions", "LinearAlgebra", "Missings", "Printf", "Random", "Reexport", "SortingAlgorithms", "Statistics", "StatsBase", "TableTraits", "Tables", "Test", "TranscodingStreams", "Unicode", "WeakRefStrings"]
git-tree-sha1 = "7e032a76f3455e38660ac456791951ac2d0b1e70"
uuid = "a93c6f00-e57d-5684-b7b6-d8193f3e46c0"
version = "0.16.0"

[[DataStreams]]
deps = ["Dates", "Missings", "Test", "WeakRefStrings"]
git-tree-sha1 = "69c72a1beb4fc79490c361635664e13c8e4a9548"
uuid = "9a8bc11e-79be-5b39-94d7-1ccc349a1a85"
version = "0.4.1"

[[DataStructures]]
deps = ["InteractiveUtils", "OrderedCollections", "Random", "Serialization", "Test"]
git-tree-sha1 = "ca971f03e146cf144a9e2f2ce59674f5bf0e8038"
uuid = "864edb3b-99cc-5e75-8d2d-829cb0a9cfe8"
version = "0.15.0"

[[Dates]]
deps = ["Printf"]
uuid = "ade2ca70-3891-5945-98fb-dc099432e06a"

[[DelimitedFiles]]
deps = ["Mmap"]
uuid = "8bb1440f-4735-579b-a4ab-409b98df4dab"

[[DiffEqDiffTools]]
deps = ["LinearAlgebra", "Test"]
git-tree-sha1 = "4b21dd83c341412a0607334ac64bb5593a4bd583"
uuid = "01453d9d-ee7c-5054-8395-0335cb756afa"
version = "0.8.0"

[[DiffResults]]
deps = ["Compat", "StaticArrays"]
git-tree-sha1 = "34a4a1e8be7bc99bc9c611b895b5baf37a80584c"
uuid = "163ba53b-c6d8-5494-b064-1a9d43ac40c5"
version = "0.0.4"

[[DiffRules]]
deps = ["Random", "Test"]
git-tree-sha1 = "dc0869fb2f5b23466b32ea799bd82c76480167f7"
uuid = "b552c78f-8df3-52c6-915a-8e097449b14b"
version = "0.0.10"

[[Distributed]]
deps = ["LinearAlgebra", "Random", "Serialization", "Sockets"]
uuid = "8ba89e20-285c-5b6f-9357-94700520ee1b"

[[Distributions]]
deps = ["Distributed", "LinearAlgebra", "PDMats", "Printf", "QuadGK", "Random", "SpecialFunctions", "Statistics", "StatsBase", "StatsFuns", "Test"]
git-tree-sha1 = "c24e9b6500c037673f0241a2783472b8c3d080c7"
uuid = "31c24e10-a181-5473-b8eb-7969acd0382f"
version = "0.16.4"

[[FixedPointNumbers]]
deps = ["Test"]
git-tree-sha1 = "b8045033701c3b10bf2324d7203404be7aef88ba"
uuid = "53c48c17-4a7d-5ca2-90c5-79b7896eea93"
version = "0.5.3"

[[ForwardDiff]]
deps = ["CommonSubexpressions", "DiffResults", "DiffRules", "InteractiveUtils", "LinearAlgebra", "NaNMath", "Random", "SparseArrays", "SpecialFunctions", "StaticArrays", "Test"]
git-tree-sha1 = "4c4d727f1b7e0092134fabfab6396b8945c1ea5b"
uuid = "f6369f11-7733-5829-9624-2563aa707210"
version = "0.10.3"

[[Future]]
deps = ["Random"]
uuid = "9fa8497b-333b-5362-9e8d-4d0656e87820"

[[GenomicFeatures]]
deps = ["Automa", "BGZFStreams", "BioCore", "BioSequences", "BufferedStreams", "ColorTypes", "DataStructures", "FixedPointNumbers", "IntervalTrees", "Libz", "Random", "Test", "URIParser"]
git-tree-sha1 = "3d6dd4ec649a45a7a7d0096d388e2701af9946f4"
uuid = "899a7d2d-5c61-547b-bef9-6698a8d05446"
version = "1.0.0"

[[IndexableBitVectors]]
deps = ["Random", "Test"]
git-tree-sha1 = "b7f5e42dc867b8a8654a5f899064632dac05bc82"
uuid = "1cb3b9ac-1ffd-5777-9e6b-a3d42300664d"
version = "1.0.0"

[[InteractiveUtils]]
deps = ["LinearAlgebra", "Markdown"]
uuid = "b77e0a4c-d291-57a0-90e8-8db25a27a240"

[[IntervalTrees]]
deps = ["InteractiveUtils", "Profile", "Random", "Test"]
git-tree-sha1 = "6c9fcd87677231ae293f6806fad928c216ab6658"
uuid = "524e6230-43b7-53ae-be76-1e9e4d08d11b"
version = "1.0.0"

[[IteratorInterfaceExtensions]]
deps = ["Test"]
git-tree-sha1 = "5484e5ede2a4137b9643f4d646e8e7b87b794415"
uuid = "82899510-4779-5014-852e-03e436cf321d"
version = "0.1.1"

[[JSON]]
deps = ["Dates", "Distributed", "Mmap", "Sockets", "Test", "Unicode"]
git-tree-sha1 = "1f7a25b53ec67f5e9422f1f551ee216503f4a0fa"
uuid = "682c06a0-de6a-54ab-a142-c8b1cf79cde6"
version = "0.20.0"

[[LibGit2]]
uuid = "76f85450-5226-5b5a-8eaa-529ad045b433"

[[Libdl]]
uuid = "8f399da3-3557-5675-b5ff-fb832c97cbdb"

[[Libz]]
deps = ["BufferedStreams", "Random", "Test"]
git-tree-sha1 = "d405194ffc0293c3519d4f7251ce51baac9cc871"
uuid = "2ec943e9-cfe8-584d-b93d-64dcb6d567b7"
version = "1.0.0"

[[LineSearches]]
deps = ["LinearAlgebra", "NLSolversBase", "NaNMath", "Parameters", "Printf", "Test"]
git-tree-sha1 = "54eb90e8dbe745d617c78dee1d6ae95c7f6f5779"
uuid = "d3d80556-e9d4-5f37-9878-2ab0fcc64255"
version = "7.0.1"

[[LinearAlgebra]]
deps = ["Libdl"]
uuid = "37e2e46d-f89d-539d-b4ee-838fcccc9c8e"

[[Logging]]
uuid = "56ddb016-857b-54e1-b83d-db4d58db5568"

[[Markdown]]
deps = ["Base64"]
uuid = "d6f4376e-aef5-505a-96c1-9c027394607a"

[[Missings]]
deps = ["Dates", "InteractiveUtils", "SparseArrays", "Test"]
git-tree-sha1 = "d1d2585677f2bd93a97cfeb8faa7a0de0f982042"
uuid = "e1d29d7a-bbdc-5cf2-9ac0-f12de2c33e28"
version = "0.4.0"

[[Mmap]]
uuid = "a63ad114-7e13-5084-954f-fe012c677804"

[[NLSolversBase]]
deps = ["Calculus", "DiffEqDiffTools", "DiffResults", "Distributed", "ForwardDiff", "LinearAlgebra", "Random", "SparseArrays", "Test"]
git-tree-sha1 = "0c6f0e7f2178f78239cfb75310359eed10f2cacb"
uuid = "d41bc354-129a-5804-8e4c-c37616107c6c"
version = "7.3.1"

[[NaNMath]]
deps = ["Compat"]
git-tree-sha1 = "ce3b85e484a5d4c71dd5316215069311135fa9f2"
uuid = "77ba4419-2d1f-58cd-9bb1-8ffee604a2e3"
version = "0.3.2"

[[Optim]]
deps = ["Calculus", "Compat", "DiffEqDiffTools", "ForwardDiff", "LineSearches", "LinearAlgebra", "NLSolversBase", "NaNMath", "Parameters", "PositiveFactorizations", "Printf", "Random", "SparseArrays", "StatsBase", "Test"]
git-tree-sha1 = "0ed8809e72d3b595930c8ade539838a99f94dc8b"
uuid = "429524aa-4258-5aef-a3af-852621145aeb"
version = "0.16.0"

[[OrderedCollections]]
deps = ["Random", "Serialization", "Test"]
git-tree-sha1 = "85619a3f3e17bb4761fe1b1fd47f0e979f964d5b"
uuid = "bac558e1-5e72-5ebc-8fee-abe8a469f55d"
version = "1.0.2"

[[PDMats]]
deps = ["Arpack", "LinearAlgebra", "SparseArrays", "SuiteSparse", "Test"]
git-tree-sha1 = "b6c91fc0ab970c0563cbbe69af18d741a49ce551"
uuid = "90014a1f-27ba-587c-ab20-58faa44d9150"
version = "0.9.6"

[[Parameters]]
deps = ["Markdown", "OrderedCollections", "REPL", "Test"]
git-tree-sha1 = "70bdbfb2bceabb15345c0b54be4544813b3444e4"
uuid = "d96e819e-fc66-5662-9728-84c9c7592b0a"
version = "0.10.3"

[[Parsers]]
deps = ["Dates", "Mmap", "Test", "WeakRefStrings"]
git-tree-sha1 = "fa95f29a7dc171e896e6dd74e25dddbccee2e0a5"
uuid = "69de0a69-1ddd-5017-9359-2bf0b02dc9f0"
version = "0.2.18"

[[Pkg]]
deps = ["Dates", "LibGit2", "Markdown", "Printf", "REPL", "Random", "SHA", "UUIDs"]
uuid = "44cfe95a-1eb2-52ea-b672-e2afdf69b78f"

[[Polynomials]]
deps = ["LinearAlgebra", "SparseArrays", "Test"]
git-tree-sha1 = "62142bd65d3f8aeb2226ec64dd8493349147df94"
uuid = "f27b6e38-b328-58d1-80ce-0feddd5e7a45"
version = "0.5.2"

[[PositiveFactorizations]]
deps = ["LinearAlgebra", "Test"]
git-tree-sha1 = "86ae7329c4b5c266acf5c7c524a972300d991e1c"
uuid = "85a6dd25-e78a-55b7-8502-1745935b8125"
version = "0.2.1"

[[Printf]]
deps = ["Unicode"]
uuid = "de0858da-6303-5e67-8744-51eddeeeb8d7"

[[Profile]]
deps = ["Printf"]
uuid = "9abbd945-dff8-562f-b5e8-e1ebf5ef1b79"

[[QuadGK]]
deps = ["DataStructures", "LinearAlgebra", "Test"]
git-tree-sha1 = "3ce467a8e76c6030d4c3786e7d3a73442017cdc0"
uuid = "1fd47b50-473d-5c70-9696-f719f8f3bcdc"
version = "2.0.3"

[[REPL]]
deps = ["InteractiveUtils", "Markdown", "Sockets"]
uuid = "3fa0cd96-eef1-5676-8a61-b3b8758bbffb"

[[Random]]
deps = ["Serialization"]
uuid = "9a3f8284-a2c9-5f02-9a11-845980a1fd5c"

[[Reexport]]
deps = ["Pkg"]
git-tree-sha1 = "7b1d07f411bc8ddb7977ec7f377b97b158514fe0"
uuid = "189a3867-3050-52da-a836-e630ba90ab69"
version = "0.2.0"

[[Requires]]
deps = ["Test"]
git-tree-sha1 = "f6fbf4ba64d295e146e49e021207993b6b48c7d1"
uuid = "ae029012-a4dd-5104-9daa-d747884805df"
version = "0.5.2"

[[Rmath]]
deps = ["BinaryProvider", "Libdl", "Random", "Statistics", "Test"]
git-tree-sha1 = "9a6c758cdf73036c3239b0afbea790def1dabff9"
uuid = "79098fc4-a85e-5d69-aa6a-4863f24498fa"
version = "0.5.0"

[[SHA]]
uuid = "ea8e919c-243c-51af-8825-aaa63cd721ce"

[[Serialization]]
uuid = "9e88b42a-f829-5b0c-bbe9-9e923198166b"

[[SharedArrays]]
deps = ["Distributed", "Mmap", "Random", "Serialization"]
uuid = "1a1011a3-84de-559e-8e89-a11a2f7dc383"

[[Sockets]]
uuid = "6462fe0b-24de-5631-8697-dd941f90decc"

[[SortingAlgorithms]]
deps = ["DataStructures", "Random", "Test"]
git-tree-sha1 = "03f5898c9959f8115e30bc7226ada7d0df554ddd"
uuid = "a2af1166-a08f-5f64-846c-94a0d3cef48c"
version = "0.3.1"

[[SparseArrays]]
deps = ["LinearAlgebra", "Random"]
uuid = "2f01184e-e22b-5df5-ae63-d93ebab69eaf"

[[SpecialFunctions]]
deps = ["BinDeps", "BinaryProvider", "Libdl", "Test"]
git-tree-sha1 = "0b45dc2e45ed77f445617b99ff2adf0f5b0f23ea"
uuid = "276daf66-3868-5448-9aa4-cd146d93841b"
version = "0.7.2"

[[StaticArrays]]
deps = ["InteractiveUtils", "LinearAlgebra", "Random", "Statistics", "Test"]
git-tree-sha1 = "1eb114d6e23a817cd3e99abc3226190876d7c898"
uuid = "90137ffa-7385-5640-81b9-e52037218182"
version = "0.10.2"

[[Statistics]]
deps = ["LinearAlgebra", "SparseArrays"]
uuid = "10745b16-79ce-11e8-11f9-7d13ad32a3b2"

[[StatsBase]]
deps = ["DataStructures", "DelimitedFiles", "LinearAlgebra", "Missings", "Printf", "Random", "SortingAlgorithms", "SparseArrays", "Statistics", "Test"]
git-tree-sha1 = "7b596062316c7d846b67bf625d5963a832528598"
uuid = "2913bbd2-ae8a-5f71-8c99-4fb6c76f3a91"
version = "0.27.0"

[[StatsFuns]]
deps = ["Rmath", "SpecialFunctions", "Test"]
git-tree-sha1 = "b3a4e86aa13c732b8a8c0ba0c3d3264f55e6bb3e"
uuid = "4c63d2b9-4356-54db-8cca-17b64c39e42c"
version = "0.8.0"

[[SuiteSparse]]
deps = ["Libdl", "LinearAlgebra", "SparseArrays"]
uuid = "4607b0f0-06f3-5cda-b6b1-a6196a1729e9"

[[TableTraits]]
deps = ["IteratorInterfaceExtensions", "Test"]
git-tree-sha1 = "eba4b1d0a82bdd773307d652c6e5f8c82104c676"
uuid = "3783bdb8-4a98-5b6b-af9a-565f29a5fe9c"
version = "0.4.1"

[[Tables]]
deps = ["IteratorInterfaceExtensions", "LinearAlgebra", "Requires", "TableTraits", "Test"]
git-tree-sha1 = "37be2ed169d5771c1ac8d516d3bcb0093c49966e"
uuid = "bd369af6-aec1-5ad0-b16a-f7cc5008161c"
version = "0.1.15"

[[Test]]
deps = ["Distributed", "InteractiveUtils", "Logging", "Random"]
uuid = "8dfed614-e22c-5e08-85e1-65c5234f0b40"

[[TranscodingStreams]]
deps = ["Pkg", "Random", "Test"]
git-tree-sha1 = "a34a2d588e2d2825602bf14a24216d5c8b0921ec"
uuid = "3bb67fe8-82b1-5028-8e26-92a6c54297fa"
version = "0.8.1"

[[Twiddle]]
deps = ["Test"]
git-tree-sha1 = "45a81952077aaf0396c3ddcbd561e660a44ce331"
uuid = "7200193e-83a8-5a55-b20d-5d36d44a0795"
version = "1.1.0"

[[URIParser]]
deps = ["Test", "Unicode"]
git-tree-sha1 = "6ddf8244220dfda2f17539fa8c9de20d6c575b69"
uuid = "30578b45-9adc-5946-b283-645ec420af67"
version = "0.4.0"

[[UUIDs]]
deps = ["Random"]
uuid = "cf7118a7-6976-5b1a-9a39-7adc72f591a4"

[[Unicode]]
uuid = "4ec0a83e-493e-50e2-b9ac-8f72acf5a8f5"

[[WeakRefStrings]]
deps = ["Missings", "Random", "Test"]
git-tree-sha1 = "cf70c71939e621a3fac4156a8bfb3c80d745794a"
uuid = "ea10d353-3f73-51f8-a26c-33c1cb351aa5"
version = "0.5.7"

[[YAML]]
deps = ["Codecs", "Compat"]
git-tree-sha1 = "3bde77cee95cce0c0b9b18813d85e18e8ed4f415"
uuid = "ddb6d928-2868-570f-bddf-ab3f9cf99eb6"
version = "0.3.2"