/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/writers/unit_test/gff3writer_test_cases/ |
H A D | mss-389-frameshift.align.gff3 | 4 …num_ident=4224;num_mismatch=1062;num_negatives=618;num_positives=4668;pct_coverage=99.83;pct_cover… 6 …;num_ident=2325;num_mismatch=857;num_negatives=444;num_positives=2739;pct_coverage=96.6879;pct_cov… 8 …;num_ident=2823;num_mismatch=380;num_negatives=177;num_positives=3027;pct_coverage=98.6753;pct_cov… 10 …;num_ident=2325;num_mismatch=863;num_negatives=456;num_positives=2733;pct_coverage=97.403;pct_cove… 12 …;num_ident=2352;num_mismatch=833;num_negatives=438;num_positives=2748;pct_coverage=97.1333;pct_cov… 14 …;num_ident=2274;num_mismatch=908;num_negatives=465;num_positives=2718;pct_coverage=97.2197;pct_cov… 16 …;num_ident=2271;num_mismatch=899;num_negatives=447;num_positives=2724;pct_coverage=96.7643;pct_cov… 18 …;num_ident=2181;num_mismatch=941;num_negatives=516;num_positives=2607;pct_coverage=95.3865;pct_cov… 20 …;num_ident=2259;num_mismatch=863;num_negatives=411;num_positives=2712;pct_coverage=94.8648;pct_cov… 22 …;num_ident=2298;num_mismatch=797;num_negatives=423;num_positives=2673;pct_coverage=94.8223;pct_cov…
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H A D | mss-389-reverse-shift.align.gff3 | 4 …ngth=1;num_ident=402;num_mismatch=2;num_negatives=3;num_positives=402;pct_coverage=99.7531;pct_cov… 6 …h=7;num_ident=558;num_mismatch=116;num_negatives=57;num_positives=618;pct_coverage=97.6812;pct_cov… 8 …h=10;num_ident=354;num_mismatch=95;num_negatives=60;num_positives=390;pct_coverage=97.1861;pct_cov… 10 …h=7;num_ident=546;num_mismatch=107;num_negatives=75;num_positives=579;pct_coverage=98.4917;pct_cov… 12 …th=1;num_ident=195;num_mismatch=89;num_negatives=39;num_positives=246;pct_coverage=99.6491;pct_cov…
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H A D | mss-389-reverse-shift.align.asn | 54 id str "pct_coverage", 160 id str "pct_coverage", 273 id str "pct_coverage", 384 id str "pct_coverage", 492 id str "pct_coverage",
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H A D | mss-389-frameshift.align.asn | 54 id str "pct_coverage", 193 id str "pct_coverage", 331 id str "pct_coverage", 468 id str "pct_coverage", 604 id str "pct_coverage", 742 id str "pct_coverage", 880 id str "pct_coverage", 1020 id str "pct_coverage", 1154 id str "pct_coverage", 1288 id str "pct_coverage",
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H A D | mss-406-end-gap.align.gff3 | 4 …mic_to_genomic=1;num_ident=1012;num_ident_quantized=3;num_mismatch=16;pct_coverage=0.00126608;pct_…
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H A D | mss-406-begin-gap.align.gff3 | 4 …mic_to_genomic=1;num_ident=11696;num_ident_quantized=4;num_mismatch=7;pct_coverage=0.0129523;pct_c…
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H A D | mss-406-end-gap.align.asn | 25 id str "pct_coverage",
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/alnmgr/ |
H A D | score_builder_base.cpp | 561 *pct_coverage = 0; in s_GetPercentCoverage() 600 *pct_coverage = 0; in s_GetPercentCoverage() 693 double pct_coverage = 0; in GetPercentCoverage() local 698 return pct_coverage; in GetPercentCoverage() 706 double pct_coverage = 0; in GetPercentCoverage() local 708 return pct_coverage; in GetPercentCoverage() 716 double pct_coverage = 0; in GetPercentCoverage() local 718 return pct_coverage; in GetPercentCoverage() 1268 double pct_coverage = 0; in ComputeScore() local 1270 return pct_coverage; in ComputeScore() [all …]
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objtools/alnmgr/ |
H A D | score_builder_base.cpp | 561 *pct_coverage = 0; in s_GetPercentCoverage() 600 *pct_coverage = 0; in s_GetPercentCoverage() 693 double pct_coverage = 0; in GetPercentCoverage() local 698 return pct_coverage; in GetPercentCoverage() 706 double pct_coverage = 0; in GetPercentCoverage() local 708 return pct_coverage; in GetPercentCoverage() 716 double pct_coverage = 0; in GetPercentCoverage() local 718 return pct_coverage; in GetPercentCoverage() 1268 double pct_coverage = 0; in ComputeScore() local 1270 return pct_coverage; in ComputeScore() [all …]
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/align/mergetree/tests/ |
H A D | NC_000001_9_NC_000001_11.asnt | 26 id str "pct_coverage", 144 id str "pct_coverage", 482 id str "pct_coverage", 1080 id str "pct_coverage", 1178 id str "pct_coverage", 1316 id str "pct_coverage", 1404 id str "pct_coverage", 1502 id str "pct_coverage", 1900 id str "pct_coverage", 2038 id str "pct_coverage", [all …]
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/align/util/unit_test/data/ |
H A D | 157696450.asn | 38 id str "pct_coverage", 109 id str "pct_coverage", 470 id str "pct_coverage", 971 id str "pct_coverage", 1462 id str "pct_coverage", 1693 id str "pct_coverage", 2524 id str "pct_coverage", 2695 id str "pct_coverage", 4676 id str "pct_coverage", 5217 id str "pct_coverage", [all …]
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H A D | 157696307.asn | 38 id str "pct_coverage", 1009 id str "pct_coverage", 1280 id str "pct_coverage", 1461 id str "pct_coverage", 1702 id str "pct_coverage", 2143 id str "pct_coverage", 2304 id str "pct_coverage", 2445 id str "pct_coverage", 3116 id str "pct_coverage", 3467 id str "pct_coverage", [all …]
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/writers/unit_test/pslwriter_test_cases/ |
H A D | rw-255-dense.asn1 | 47 id str "pct_coverage", 245 id str "pct_coverage", 353 id str "pct_coverage", 756 id str "pct_coverage", 1524 id str "pct_coverage", 1772 id str "pct_coverage", 1885 id str "pct_coverage", 1988 id str "pct_coverage", 2186 id str "pct_coverage", 2339 id str "pct_coverage", [all …]
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/readers/unit_test/gff3reader_test_cases/ |
H A D | rw-228.gff3 | 172 …ty=0.980574;idty=0.989011;matches=1060;num_ident=1060;num_mismatch=15;pct_coverage=100;pct_coverag… 176 …;identity=0.980574;idty=1;matches=1060;num_ident=1060;num_mismatch=15;pct_coverage=100;pct_coverag… 179 …2;identity=0.961102;idty=1;matches=1186;num_ident=1186;num_mismatch=6;pct_coverage=96.5964;pct_cov… 180 …2;identity=0.961102;idty=1;matches=1186;num_ident=1186;num_mismatch=6;pct_coverage=96.5964;pct_cov… 181 …ity=0.961102;idty=0.966667;matches=1186;num_ident=1186;num_mismatch=6;pct_coverage=96.5964;pct_cov… 182 …ity=0.961102;idty=0.995169;matches=1186;num_ident=1186;num_mismatch=6;pct_coverage=96.5964;pct_cov… 183 …ity=0.961102;idty=0.993007;matches=1186;num_ident=1186;num_mismatch=6;pct_coverage=96.5964;pct_cov… 184 …2;identity=0.961102;idty=1;matches=1186;num_ident=1186;num_mismatch=6;pct_coverage=96.5964;pct_cov… 193 …;identity=0.988609;idty=1;matches=1649;num_ident=1649;num_mismatch=16;pct_coverage=99.88;pct_cover… 203 …6.1 1 235 +;for_remapping=2;gap_count=1;num_ident=2423;num_mismatch=0;pct_coverage=99.9587;pct_cov… [all …]
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H A D | rw-225.gff3 | 4 …2;gap_count=1;hsp_percent_coverage=100;num_ident=35578;num_mismatch=1;pct_coverage=99.9972;pct_cov…
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H A D | alignment.gff3 | 4 …81;common_component=1;filter_score=0;num_ident=122245;num_mismatch=82;pct_coverage=95.2814;pct_ide…
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H A D | rw-225.asn | 59 id str "pct_coverage",
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/readers/unit_test/gff3reader_test_cases_genbank/ |
H A D | rw-228.gff3 | 172 …ty=0.980574;idty=0.989011;matches=1060;num_ident=1060;num_mismatch=15;pct_coverage=100;pct_coverag… 176 …;identity=0.980574;idty=1;matches=1060;num_ident=1060;num_mismatch=15;pct_coverage=100;pct_coverag… 179 …2;identity=0.961102;idty=1;matches=1186;num_ident=1186;num_mismatch=6;pct_coverage=96.5964;pct_cov… 180 …2;identity=0.961102;idty=1;matches=1186;num_ident=1186;num_mismatch=6;pct_coverage=96.5964;pct_cov… 181 …ity=0.961102;idty=0.966667;matches=1186;num_ident=1186;num_mismatch=6;pct_coverage=96.5964;pct_cov… 182 …ity=0.961102;idty=0.995169;matches=1186;num_ident=1186;num_mismatch=6;pct_coverage=96.5964;pct_cov… 183 …ity=0.961102;idty=0.993007;matches=1186;num_ident=1186;num_mismatch=6;pct_coverage=96.5964;pct_cov… 184 …2;identity=0.961102;idty=1;matches=1186;num_ident=1186;num_mismatch=6;pct_coverage=96.5964;pct_cov… 193 …;identity=0.988609;idty=1;matches=1649;num_ident=1649;num_mismatch=16;pct_coverage=99.88;pct_cover… 203 …6.1 1 235 +;for_remapping=2;gap_count=1;num_ident=2423;num_mismatch=0;pct_coverage=99.9587;pct_cov… [all …]
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H A D | rw-225.gff3 | 4 …2;gap_count=1;hsp_percent_coverage=100;num_ident=35578;num_mismatch=1;pct_coverage=99.9972;pct_cov…
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H A D | alignment.gff3 | 4 …81;common_component=1;filter_score=0;num_ident=122245;num_mismatch=82;pct_coverage=95.2814;pct_ide…
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/align/ngalign/app/ |
H A D | ngalign_simple.ini | 28 perfect = " pct_identity_ungap >= 99.0 AND pct_coverage >= 99.0 AND common_component = 1 " 29 good = " pct_identity_ungap >= 99.0 AND pct_coverage >= 99.0 " 30 ok = " pct_identity_ungap >= 95.0 AND pct_coverage >= 95.0 " 31 terrible = " pct_identity_ungap >= 80.0 AND pct_coverage >= 25.0 "
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/writers/unit_test/gff3flybasewriter_test_cases/ |
H A D | 5E09_A.asn | 54 id str "pct_coverage", 202 id str "pct_coverage",
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H A D | 5E09_A.gff3 | 8 …62317 10033317 10033424 +;def=Chain A%2C Dpr6%2C isoform C;taxid=7227;pct_coverage=96.3636;pct_ide…
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/writers/unit_test/alnwriter_test_cases/ |
H A D | denseg-mixed-strands-with-gi.asn | 54 id str "pct_coverage",
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H A D | denseg-mixed-strands.asn | 54 id str "pct_coverage",
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