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comparison test-data/hcv_rules.1.8.yaml @ 0:1e0389317446 draft

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"planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/blob/master/tools/micall-lite commit 9c3ab5825c19a7c400a46f727975edb480a91c09"
author public-health-bioinformatics
date Mon, 06 Jan 2020 19:11:48 -0500
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-1:000000000000 0:1e0389317446
1 - code: ASV
2 genotypes:
3 - genotype: 1A
4 reference: HCV1A-H77-NS3
5 region: NS3
6 rules: SCORE FROM ( V36GLM => 4, V36!AGLMV => "Effect unknown", T54S => 4,
7 V55A => 4, Q80KLR => 4, Q80!KLQR => "Effect unknown", S122GINT => 4,
8 S122!GINRST => "Effect unknown", R155GQ => 4, R155K => 8,
9 R155!GKQR => "Effect unknown", A156!A => "Effect unknown", D168AEGVY => 8,
10 D168FHNT => 4, D168CIKLMPQRSW => "Effect unknown", I170T => 4 )
11 - genotype: 1B
12 reference: HCV1B-Con1-NS3
13 region: NS3
14 rules: SCORE FROM ( V36GM => 4, V36!AGLMV => "Effect unknown", T54S => 4,
15 Y56HL => 4, Y56!HLY => "Effect unknown", N77S => 4, Q80K => 8, Q80LR => 4,
16 Q80!KLQR => "Effect unknown", S122DGINT => 4,
17 S122!DGINST => "Effect unknown", R155GQ => 4, R155K => 8,
18 R155!GKQR => "Effect unknown", A156ST => 4, A156V => 8,
19 A156!ASTV => "Effect unknown", D168ACEGHVY => 8, D168FNT => 4,
20 D168IKLMPQRSW => "Effect unknown", V170A => 4 )
21 - genotype: '2'
22 reference: HCV2-JFH-1-NS3
23 region: NS3
24 rules: SCORE FROM ( TRUE => "Not indicated" )
25 - genotype: '3'
26 reference: HCV3-S52-NS3
27 region: NS3
28 rules: SCORE FROM ( TRUE => "Not indicated" )
29 - genotype: '4'
30 reference: HCV4-ED43-NS3
31 region: NS3
32 rules: SCORE FROM ( TRUE => "Not indicated" )
33 - genotype: '5'
34 reference: HCV5-SA13-NS3
35 region: NS3
36 rules: SCORE FROM ( TRUE => "Not indicated" )
37 - genotype: '6'
38 reference: HCV6-EUHK2-NS3
39 region: NS3
40 rules: SCORE FROM ( TRUE => "Not indicated" )
41 name: Asunaprevir
42 - code: DCV
43 genotypes:
44 - genotype: 1A
45 reference: HCV1A-H77-NS5a
46 region: NS5a
47 rules: SCORE FROM ( K24R => 4, K24T => 8, M28AGT => 8, M28V => 4,
48 M28!AGILMTV => "Effect unknown", Q30DEGHKNRY => 8, Q30T => 4,
49 Q30AFMSW => "Effect unknown", L31IMV => 8, L31!ILMV => "Effect unknown",
50 P32L => 8, P32!LP => "Effect unknown", H54RY => 4,
51 H54!CHNRY => "Effect unknown", H58D => 8, H58PV => 4,
52 H58AEFGIKMTW => "Effect unknown", A92K => 8, A92P => 4,
53 A92!AKPTV => "Effect unknown", Y93CHNST => 8, Y93FR => 4,
54 Y93!CFHNRSTY => "Effect unknown" )
55 - genotype: 1B
56 reference: HCV1B-Con1-NS5a
57 region: NS5a
58 rules: SCORE FROM ( L28AMT => 4, L28!AILMTV => "Effect unknown", P29S => 4,
59 P29d => 8, R30G => 8, R30HKQ => 4, R30!GHKLPQRST => "Effect unknown",
60 L31FIMW => 4, L31V => 8, L31!FILMVW => "Effect unknown", P32d => 8,
61 P32!LP => "Effect unknown", Q54H => 4, P58LS => 4, Q62E => 4, A92E => 4,
62 A92K => 8, A92!AEKPTV => "Effect unknown", Y93H => 8, Y93N => 4,
63 Y93!CFHLNY => "Effect unknown" )
64 - genotype: '2'
65 reference: HCV2-JFH-1-NS5a
66 region: NS5a
67 rules: SCORE FROM ( F28CS => 8, F28!CFILS => "Effect unknown", L31M => 8,
68 L31!LM => "Effect unknown", C92R => 8, C92!CR => "Effect unknown",
69 Y93H => 8, Y93!HY => "Effect unknown" )
70 - genotype: '3'
71 reference: HCV3-S52-NS5a
72 region: NS5a
73 rules: SCORE FROM ( M28K => 8, M28T => 4, M28!IKMTV => "Effect unknown",
74 A30EK => 8, A30SV => 4, A30!AEKRSTV => "Effect unknown", L31FIMV => 8,
75 L31P => 4, L31!FILMPV => "Effect unknown", P58H => 4, S62AILPRT => 4,
76 S62CEFGHMVWY => "Effect unknown", E92G => 4, Y93H => 8,
77 Y93!HY => "Effect unknown" )
78 - genotype: '4'
79 reference: HCV4-ED43-NS5a
80 region: NS5a
81 rules: SCORE FROM ( TRUE => "Not indicated" )
82 - genotype: '5'
83 reference: HCV5-SA13-NS5a
84 region: NS5a
85 rules: SCORE FROM ( TRUE => "Not indicated" )
86 - genotype: '6'
87 reference: HCV6-EUHK2-NS5a
88 region: NS5a
89 rules: SCORE FROM ( TRUE => "Not indicated" )
90 name: Daclatasvir
91 - code: DAS
92 genotypes:
93 - genotype: 1A
94 reference: HCV1A-H77-NS5b
95 region: NS5b
96 rules: SCORE FROM ( G307R => 4, L314H => 8, L314!HL => "Effect unknown",
97 C316Y => 8, C316!CY => "Effect unknown", A395G => 8,
98 A395!AG => "Effect unknown", M414ITV => 8, M414!IMTV => "Effect unknown",
99 N444K => 8, N444!KN => "Effect unknown", E446KQ => 8,
100 E446!EKQ => "Effect unknown", Y448CH => 8, Y448!CHY => "Effect unknown",
101 A450V => 4, A553I => 4, A553TV => 8, A553!AITV => "Effect unknown",
102 G554S => 8, G554!DGS => "Effect unknown", S556GR => 8,
103 S556!GRS => "Effect unknown", G558R => 4, D559GINV => 4,
104 D559!DGINV => "Effect unknown", Y561H => 8, Y561!HY => "Effect unknown",
105 L588F => 4 )
106 - genotype: 1B
107 reference: HCV1B-Con1-NS5b
108 region: NS5b
109 rules: SCORE FROM ( C316HNY => 8, C316!CHNY => "Effect unknown", S368T => 8,
110 A395!A => "Effect unknown", N411S => 8, M414ITV => 8,
111 M414!IMTV => "Effect unknown", D444!D => "Effect unknown", C445F => 4,
112 Y448CH => 8, Y448!CHY => "Effect unknown", A553V => 8,
113 A553!AV => "Effect unknown", S556G => 8, S556R => 4,
114 S556!GRS => "Effect unknown", D559G => 8, D559!DG => "Effect unknown" )
115 - genotype: '2'
116 reference: HCV2-JFH-1-NS5b
117 region: NS5b
118 rules: SCORE FROM ( TRUE => "Not indicated" )
119 - genotype: '3'
120 reference: HCV3-S52-NS5b
121 region: NS5b
122 rules: SCORE FROM ( TRUE => "Not indicated" )
123 - genotype: '4'
124 reference: HCV4-ED43-NS5b
125 region: NS5b
126 rules: SCORE FROM ( TRUE => "Not indicated" )
127 - genotype: '5'
128 reference: HCV5-SA13-NS5b
129 region: NS5b
130 rules: SCORE FROM ( TRUE => "Not indicated" )
131 - genotype: '6'
132 reference: HCV6-EUHK2-NS5b
133 region: NS5b
134 rules: SCORE FROM ( TRUE => "Not indicated" )
135 name: Dasabuvir
136 - code: EBV
137 genotypes:
138 - genotype: 1A
139 reference: HCV1A-H77-NS5a
140 region: NS5a
141 rules: SCORE FROM ( K24R => 4, M28AGT => 8, M28V => 4,
142 M28!AGMTV => "Effect unknown", Q30DEGHKR => 8, Q30LY => 4,
143 Q30!DEGHKLQRY => "Effect unknown", L31FIMV => 8,
144 L31!FILMV => "Effect unknown", H58D => 8, H58!DH => "Effect unknown",
145 E62D => 4, Y93CHN => 8, Y93S => 4, Y93!CFHNSY => "Effect unknown",
146 D427N => 4 )
147 - genotype: 1B
148 reference: HCV1B-Con1-NS5a
149 region: NS5a
150 rules: SCORE FROM ( L28M => 4, R30Q => 8, L31FMV => 8,
151 L31!FLMV => "Effect unknown", P58S => 4, Y93H => 8,
152 Y93!CHY => "Effect unknown" )
153 - genotype: '2'
154 reference: HCV2-JFH-1-NS5a
155 region: NS5a
156 rules: SCORE FROM ( TRUE => "Not indicated" )
157 - genotype: '3'
158 reference: HCV3-S52-NS5a
159 region: NS5a
160 rules: SCORE FROM ( A30DK => 8, A30!ADK => "Effect unknown", L31FM => 8,
161 L31!FLM => "Effect unknown", P58S => 4, P58!PS => "Effect unknown",
162 S62APT => 4, S62!APST => "Effect unknown", Y93H => 8,
163 Y93!HY => "Effect unknown" )
164 - genotype: '4'
165 reference: HCV4-ED43-NS5a
166 region: NS5a
167 rules: SCORE FROM ( L28MST => 4, L30FH => 8, L30RS => 4,
168 L30!FHLPRS => "Effect unknown", M31I => 4, M31V => 8,
169 M31!IMV => "Effect unknown", P32L => 4, H54Y => 4, P58D => 8, P58TY => 4,
170 P58!DPTY => "Effect unknown", Y93C => 4, Y93H => 8,
171 Y93!CHY => "Effect unknown" )
172 - genotype: '5'
173 reference: HCV5-SA13-NS5a
174 region: NS5a
175 rules: SCORE FROM ( TRUE => "Not indicated" )
176 - genotype: '6'
177 reference: HCV6-EUHK2-NS5a
178 region: NS5a
179 rules: SCORE FROM ( TRUE => "Not indicated" )
180 name: Elbasvir
181 - code: GLP
182 genotypes:
183 - genotype: 1A
184 reference: HCV1A-H77-NS3
185 region: NS3
186 rules: SCORE FROM ( V36AFM => 4, V36!AFLMV => "Effect unknown", V55AI => 4,
187 V55!AIV => "Effect unknown", Y56H => 4, Q80KL => 4,
188 Q80!KLQR => "Effect unknown", I132V => 4, R155KT => 4,
189 R155!KMRSTV => "Effect unknown", A156GV => 4, A156T => 8,
190 A156!AGTV => "Effect unknown", D168AFY => 8, D168EHTV => 4,
191 D168!ADEFHNTVY => "Effect unknown" )
192 - genotype: 1B
193 reference: HCV1B-Con1-NS3
194 region: NS3
195 rules: SCORE FROM ( Y56F => 4, A156TV => 8, A156!ASTV => "Effect unknown",
196 D168FTV => 4, D168K => 8, D168!ADEFHKTVY => "Effect unknown", E176G => 4 )
197 - genotype: '2'
198 reference: HCV2-JFH-1-NS3
199 region: NS3
200 rules: SCORE FROM ( I132L => 4, A156MTV => 8, A156!AMTV => "Effect unknown",
201 D168EFHT => 4, D168!ADEFHSTVY => "Effect unknown" )
202 - genotype: '3'
203 reference: HCV3-S52-NS3
204 region: NS3
205 rules: SCORE FROM ( T54S => 4, Y56HN => 4, Y56!HNY => "Effect unknown",
206 Q80KR => 8, Q80!KQR => "Effect unknown", V107I => 4, L132I => 4,
207 A156G => 8, A156!AG => "Effect unknown", A166T => 8, A166SY => 4,
208 A166!ASTY => "Effect unknown", Q168K => 4, Q168LR => 8,
209 Q168!HKLQR => "Effect unknown", D186LR => 4, D186!DLR => "Effect unknown",
210 I366V => 4 )
211 - genotype: '4'
212 reference: HCV4-ED43-NS3
213 region: NS3
214 rules: SCORE FROM ( Y56H => 4, G90R => 4, R155C => 4, A156TV => 8,
215 A156!ATV => "Effect unknown", D168H => 8, D168V => 4,
216 D168!DHV => "Effect unknown" )
217 - genotype: '5'
218 reference: HCV5-SA13-NS3
219 region: NS3
220 rules: SCORE FROM ( A156!A => "Effect unknown", D168E => 4,
221 D168!DE => "Effect unknown" )
222 - genotype: '6'
223 reference: HCV6-EUHK2-NS3
224 region: NS3
225 rules: SCORE FROM ( L80R => 8, L80!LR => "Effect unknown",
226 A156M => 4, A156!AM => "Effect unknown", D168AGHVY => 8,
227 D168!ADGHVY => "Effect unknown" )
228 name: Glecaprevir
229 - code: GZR
230 genotypes:
231 - genotype: 1A
232 reference: HCV1A-H77-NS3
233 region: NS3
234 rules: SCORE FROM ( V36ALM => 4, V36!AILMV => "Effect unknown", Q41R => 4,
235 I48V => 4, V55A => 4, Y56F => 4, Y56H => 8, Y56!FHY => "Effect unknown",
236 Q80KL => 8, Q80S => 4, Q80!KLQRS => "Effect unknown", V107I => 4,
237 S122GT => 4, S122!AGRST => "Effect unknown", I132V => 4, R155GIS => 4,
238 R155KQTW => 8, R155!GIKQRSTW => "Effect unknown", A156GLTV => 8,
239 A156!AGLSTV => "Effect unknown", V158A => 4, D168!CDMPQRSW => 8,
240 D168C => 4, D168MPQRW => "Effect unknown", I170V => 4, T185S => 4,
241 E357GK => 4 )
242 - genotype: 1B
243 reference: HCV1B-Con1-NS3
244 region: NS3
245 rules: SCORE FROM ( T54S => 4, Y56H => 8, Y56F => 4,
246 Y56!FHY => "Effect unknown", Q80L => 4, V107I => 4, S122NRT => 4,
247 S122!AGNRST => "Effect unknown", V132IL => 4, V132!ILV => "Effect unknown",
248 R155GTW => 8, R155Q => 4, R155!EGKNQRSTW => "Effect unknown", A156TV => 8,
249 A156!AGSTV => "Effect unknown", D168AEFGHIKLTV => 8, D168NY => 4,
250 D168CMPQRW => "Effect unknown", V170I => 4, T185S => 4, E357K => 4 )
251 - genotype: '2'
252 reference: HCV2-JFH-1-NS3
253 region: NS3
254 rules: SCORE FROM ( TRUE => "Not indicated" )
255 - genotype: '3'
256 reference: HCV3-S52-NS3
257 region: NS3
258 rules: SCORE FROM ( Y56H => 4, A156TV => 8, A156!ATV => "Effect unknown",
259 Q168!HQR => "Effect unknown", Q178R => 4 )
260 - genotype: '4'
261 reference: HCV4-ED43-NS3
262 region: NS3
263 rules: SCORE FROM ( V107I => 4, A156MTV => 4, A156!AMTV => "Effect unknown",
264 D168AV => 8, D168EG => 4, D168!ADEGV => "Effect unknown", V170I => 4 )
265 - genotype: '5'
266 reference: HCV5-SA13-NS3
267 region: NS3
268 rules: SCORE FROM ( TRUE => "Not indicated" )
269 - genotype: '6'
270 reference: HCV6-EUHK2-NS3
271 region: NS3
272 rules: SCORE FROM ( V36IL => 4, V36!ILV => "Effect unknown", Y56H => 4,
273 L80KQ => 4, L80!KLQ => "Effect unknown", I132L => 4, A156MTV => 4,
274 A156!AMTV => "Effect unknown", D168CEY => 4, D168!CDEY => "Effect unknown",
275 I170V => 4 )
276 name: Grazoprevir
277 - code: LDV
278 genotypes:
279 - genotype: 1A
280 reference: HCV1A-H77-NS5a
281 region: NS5a
282 rules: SCORE FROM ( K24R => 4, M28AGT => 8, M28V => 4,
283 M28!AGILMTV => "Effect unknown", Q30EGHKNRY => 8, Q30LT => 4,
284 Q30ADFMPSW => "Effect unknown", L31IMV => 8, L31P => 4,
285 L31!ILMPV => "Effect unknown", P32L => 8, P32!LP => "Effect unknown",
286 S38F => 8, S38!FST => "Effect unknown", H58D => 8, H58PR => 4,
287 H58!CDHPQRY => "Effect unknown", A92K => 8, A92!AKPTV => "Effect unknown",
288 Y93CHLNRSTW => 8, Y93F => 4, Y93ADEGIKMPQV => "Effect unknown" )
289 - genotype: 1B
290 reference: HCV1B-Con1-NS5a
291 region: NS5a
292 rules: SCORE FROM ( L28M => 4, L31IMV => 4, L31!FILMV => "Effect unknown",
293 P58D => 8, P58!DPQRST => "Effect unknown", A92K => 8, A92T => 4,
294 A92!AEKTV => "Effect unknown", Y93CS => 4, Y93HN => 8,
295 Y93!CFHLNSY => "Effect unknown" )
296 - genotype: '2'
297 reference: HCV2-JFH-1-NS5a
298 region: NS5a
299 rules: SCORE FROM ( TRUE => "Not indicated" )
300 - genotype: '3'
301 reference: HCV3-S52-NS5a
302 region: NS5a
303 rules: SCORE FROM ( TRUE => "Not indicated" )
304 - genotype: '4'
305 reference: HCV4-ED43-NS5a
306 region: NS5a
307 rules: SCORE FROM ( TRUE => "Not indicated" )
308 - genotype: '5'
309 reference: HCV5-SA13-NS5a
310 region: NS5a
311 rules: SCORE FROM ( TRUE => "Not indicated" )
312 - genotype: '6'
313 reference: HCV6-EUHK2-NS5a
314 region: NS5a
315 rules: SCORE FROM ( TRUE => "Not indicated" )
316 name: Ledipasvir
317 - code: OMB
318 genotypes:
319 - genotype: 1A
320 reference: HCV1A-H77-NS5a
321 region: NS5a
322 rules: SCORE FROM ( K24R => 4, M28A => 4, M28TV => 8,
323 M28!AMTV => "Effect unknown", Q30EKRY => 8,
324 Q30!EHKLNQRTY => "Effect unknown", L31V => 8, L31!ILMV => "Effect unknown",
325 P32L => 4, H54Y => 4, H58D => 8, H58PR => 4, H58!DHPR => "Effect unknown",
326 E62D => 4, Y93CFHLNS => 8, Y93!CFHLNSY => "Effect unknown" )
327 - genotype: 1B
328 reference: HCV1B-Con1-NS5a
329 region: NS5a
330 rules: SCORE FROM ( L28M => 4, L28T => 8, L28!LMT => "Effect unknown",
331 P29d => 8, P29!P => "Effect unknown", R30Q => 4, L31FMV => 4,
332 L31!FILMTV => "Effect unknown", Q54Y => 4, P58S => 4, Y93HN => 8,
333 Y93S => 4, Y93!HNSY => "Effect unknown" )
334 - genotype: '2'
335 reference: HCV2-JFH-1-NS5a
336 region: NS5a
337 rules: SCORE FROM ( TRUE => "Not indicated" )
338 - genotype: '3'
339 reference: HCV3-S52-NS5a
340 region: NS5a
341 rules: SCORE FROM ( TRUE => "Not indicated" )
342 - genotype: '4'
343 reference: HCV4-ED43-NS5a
344 region: NS5a
345 rules: SCORE FROM ( L28S => 4, L28V => 8, L28!LSV => "Effect unknown",
346 M31I => 4, P58S => 4 )
347 - genotype: '5'
348 reference: HCV5-SA13-NS5a
349 region: NS5a
350 rules: SCORE FROM ( TRUE => "Not indicated" )
351 - genotype: '6'
352 reference: HCV6-EUHK2-NS5a
353 region: NS5a
354 rules: SCORE FROM ( TRUE => "Not indicated" )
355 name: Ombitasvir
356 - code: PIB
357 genotypes:
358 - genotype: 1A
359 reference: HCV1A-H77-NS5a
360 region: NS5a
361 rules: SCORE FROM ( K24EQR => 4, K24!EKQR => "Effect unknown", M28ATV => 4,
362 M28G => 8, M28!AGMTV => "Effect unknown", P29QR => 4,
363 P29!PQR => "Effect unknown", Q30Dd => 8, Q30EGHKLR => 4,
364 Q30!DEGHKLQRY => "Effect unknown", L31M => 4, H58CDY => 4,
365 H58!CDHPRY => "Effect unknown", E62A => 8, E62!ADE => "Effect unknown",
366 Y93HN => 8, Y93!CFHLNSY => "Effect unknown" )
367 - genotype: 1B
368 reference: HCV1B-Con1-NS5a
369 region: NS5a
370 rules: SCORE FROM ( L28M => 4, P29d => 4, R30Q => 4, L31K => 4, P32KNRT => 4,
371 P32d => 8, P32!KNPRT => "Effect unknown" )
372 - genotype: '2'
373 reference: HCV2-JFH-1-NS5a
374 region: NS5a
375 rules: SCORE FROM ( L31M => 4 )
376 - genotype: '3'
377 reference: HCV3-S52-NS5a
378 region: NS5a
379 rules: SCORE FROM ( S24FG => 4, S24!FGS => "Effect unknown", M28GK => 4,
380 M28!GKMT => "Effect unknown", P29Q => 4, A30GK => 4,
381 A30!AGK => "Effect unknown", L31FIM => 4, L31!FILM => "Effect unknown",
382 E92!E => "Effect unknown", Y93H => 4, Y93!HY => "Effect unknown" )
383 - genotype: '4'
384 reference: HCV4-ED43-NS5a
385 region: NS5a
386 rules: SCORE FROM ( TRUE => 0 )
387 - genotype: '5'
388 reference: HCV5-SA13-NS5a
389 region: NS5a
390 rules: SCORE FROM ( T93A => 4, T93!TA => "Effect unknown" )
391 - genotype: '6'
392 reference: HCV6-EUHK2-NS5a
393 region: NS5a
394 rules: SCORE FROM ( TRUE => 0 )
395 name: Pibrentasvir
396 - code: PAR
397 genotypes:
398 - genotype: 1A
399 reference: HCV1A-H77-NS3
400 region: NS3
401 rules: SCORE FROM ( V36AMT => 4, V36!ALMTV => "Effect unknown", F43L => 8,
402 F43!FL => "Effect unknown", V55I => 4, Y56H => 4, Q80KL => 4,
403 Q80!KLQR => "Effect unknown", I132V => 4, R155GKTW => 8, R155SV => 4,
404 R155!GKMRSTVW => "Effect unknown", A156G => 4, A156T => 8,
405 A156!AGT => "Effect unknown", D168!CDGMPQRSW => 8,
406 D168CGMPQRSW => "Effect unknown", P334S => 4, S342P => 4, E357K => 4,
407 V406AI => 4, V406!AIV => "Effect unknown", T449I => 4, P470S => 4 )
408 - genotype: 1B
409 reference: HCV1B-Con1-NS3
410 region: NS3
411 rules: SCORE FROM ( Y56FH => 4, R155K => 8, R155!KR => "Effect unknown",
412 A156T => 4, A156V => 8, A156!ASTV => "Effect unknown", D168AFHKTVY => 8,
413 D168ILN => 4, D168CGMPQRSW => "Effect unknown", E357K => 4 )
414 - genotype: '2'
415 reference: HCV2-JFH-1-NS3
416 region: NS3
417 rules: SCORE FROM ( TRUE => "Not indicated" )
418 - genotype: '3'
419 reference: HCV3-S52-NS3
420 region: NS3
421 rules: SCORE FROM ( TRUE => "Not indicated" )
422 - genotype: '4'
423 reference: HCV4-ED43-NS3
424 region: NS3
425 rules: SCORE FROM ( Y56H => 8, Y56!HY => "Effect unknown", R155C => 8,
426 R155!CR => "Effect unknown", A156TV => 8, A156!ATV => "Effect unknown",
427 D168HV => 8, D168!DHV => "Effect unknown" )
428 - genotype: '5'
429 reference: HCV5-SA13-NS3
430 region: NS3
431 rules: SCORE FROM ( TRUE => "Not indicated" )
432 - genotype: '6'
433 reference: HCV6-EUHK2-NS3
434 region: NS3
435 rules: SCORE FROM ( TRUE => "Not indicated" )
436 name: Paritaprevir
437 - code: SOF-EPC
438 genotypes:
439 - genotype: 1A
440 reference: HCV1A-H77-NS5b
441 region: NS5b
442 rules: SCORE FROM ( D61G => 4, S62N => 4, D66G => 4, F101L => 4, A112T => 4,
443 N142T => 4, L159F => 4, L159!FL => "Effect unknown", E202G => 4,
444 E237G => 4, S282GRT => 8, S282!GRST => 4, C316HR => 4,
445 C316!CHR => "Effect unknown", L320IV => 4, L320!ILV => "Effect unknown",
446 V321AFI => 4, V321!AFIV => "Effect unknown", Q355H => 4, F415Y => 4,
447 S473T => 4, N590d => 4 )
448 - genotype: 1B
449 reference: HCV1B-Con1-NS5b
450 region: NS5b
451 rules: SCORE FROM ( N142S => 4, L159!L => "Effect unknown", S282GRT => 8,
452 S282!GRST => 4, C316!C => "Effect unknown",
453 L320!L => "Effect unknown", V321!V => "Effect unknown", K355T => 4 )
454 - genotype: '2'
455 reference: HCV2-JFH-1-NS5b
456 region: NS5b
457 rules: SCORE FROM ( L159!L => "Effect unknown", S282GRT => 8,
458 S282!GRST => 4, C316!C => "Effect unknown",
459 M289I => 4, L320!L => "Effect unknown", V321!V => "Effect unknown" )
460 - genotype: '3'
461 reference: HCV3-S52-NS5b
462 region: NS5b
463 rules: SCORE FROM ( K100R => 4, R120C => 4, N142ST => 4, L159F => 4,
464 L159!FL => "Effect unknown", E237G => 4, S282GRT => 8,
465 S282!GRST => 4, L314FIP => 4, C316!C => "Effect unknown",
466 L320FI => 4, L320!FIL => "Effect unknown", V321A => 4,
467 V321!AV => "Effect unknown", Q355HR => 4 )
468 - genotype: '4'
469 reference: HCV4-ED43-NS5b
470 region: NS5b
471 rules: SCORE FROM ( L159!L => "Effect unknown", E237G => 4, S282GRT => 8,
472 S282!GRST => 4, C316!C => "Effect unknown",
473 L320!L => "Effect unknown", V321I => 4, V321!IV => "Effect unknown" )
474 - genotype: '5'
475 reference: HCV5-SA13-NS5b
476 region: NS5b
477 rules: SCORE FROM ( L159!L => "Effect unknown", S282GRT => 8,
478 S282!GRST => 4, M289I => 4, C316!C => "Effect unknown",
479 L320!L => "Effect unknown", V321!V => "Effect unknown" )
480 - genotype: '6'
481 reference: HCV6-EUHK2-NS5b
482 region: NS5b
483 rules: SCORE FROM ( L159!L => "Effect unknown", S282GRT => 8,
484 S282!GRST => 4, C316!C => "Effect unknown",
485 L320!L => "Effect unknown", V321!V => "Effect unknown" )
486 - genotype: 6E
487 reference: HCV6-EUHK2-NS5b
488 region: NS5b
489 rules: SCORE FROM ( TRUE => "Data not available" )
490 name: Sofosbuvir in Epclusa
491 - code: SOF-HAR
492 genotypes:
493 - genotype: 1A
494 reference: HCV1A-H77-NS5b
495 region: NS5b
496 rules: SCORE FROM ( D61G => 4, S62N => 4, D66G => 4, F101L => 4, A112T => 4,
497 N142T => 4, L159F => 4, L159!FL => "Effect unknown", E202G => 4,
498 E237G => 4, S282GRT => 8, S282!GRST => 4, C316HR => 4,
499 C316!CHR => "Effect unknown", L320IV => 4, L320!ILV => "Effect unknown",
500 V321AFI => 4, V321!AFIV => "Effect unknown", Q355H => 4, F415Y => 4,
501 S473T => 4, N590d => 4 )
502 - genotype: 1B
503 reference: HCV1B-Con1-NS5b
504 region: NS5b
505 rules: SCORE FROM ( N142S => 4, L159!L => "Effect unknown", S282GRT => 8,
506 S282!GRST => 4, C316!C => "Effect unknown",
507 L320!L => "Effect unknown", V321!V => "Effect unknown", K355T => 4 )
508 - genotype: '2'
509 reference: HCV2-JFH-1-NS5b
510 region: NS5b
511 rules: SCORE FROM ( TRUE => "Not indicated" )
512 - genotype: '3'
513 reference: HCV3-S52-NS5b
514 region: NS5b
515 rules: SCORE FROM ( TRUE => "Not indicated" )
516 - genotype: '4'
517 reference: HCV4-ED43-NS5b
518 region: NS5b
519 rules: SCORE FROM ( TRUE => "Not indicated" )
520 - genotype: '5'
521 reference: HCV5-SA13-NS5b
522 region: NS5b
523 rules: SCORE FROM ( TRUE => "Not indicated" )
524 - genotype: '6'
525 reference: HCV6-EUHK2-NS5b
526 region: NS5b
527 rules: SCORE FROM ( TRUE => "Not indicated" )
528 name: Sofosbuvir in Harvoni
529 - code: SIM
530 genotypes:
531 - genotype: 1A
532 reference: HCV1A-H77-NS3
533 region: NS3
534 rules: SCORE FROM ( A5V => 4, V36L => 4, Q41R => 4, T54S => 4, V71A => 4,
535 Q80KR => 8, Q80L => 4, Q80!KLQR => "Effect unknown", G120S => 4,
536 S122ACGIT => 4, S122NR => 8, S122!ACGINRST => "Effect unknown", R123M => 4,
537 I132L => 4, R155GQ => 4, R155KT => 8, R155!GKQRT => "Effect unknown",
538 A156GTV => 8, A156!AGTV => "Effect unknown", D168AEHV => 8, D168FT => 4,
539 D168!ADEFHTV => "Effect unknown", I170T => 8, I170V => 4,
540 I170!ITV => "Effect unknown", N174RS => 4, T178I => 4, T343N => 4,
541 T344I => 4, L356F => 4, A477T => 4, V511I => 4, G534S => 4, E555D => 4,
542 V629I => 4 )
543 - genotype: 1B
544 reference: HCV1B-Con1-NS3
545 region: NS3
546 rules: SCORE FROM ( A39T => 4, F43ISV => 8, F43!FILSV => "Effect unknown",
547 T46S => 4, V48I => 4, S61L => 4, Q80H => 4, Q80KR => 8,
548 Q80!GHKLQR => "Effect unknown", Q86R => 4, R117C => 4, S122AGIT => 4,
549 S122R => 8, S122!AGIRST => "Effect unknown", R155GKQTW => 8,
550 R155!GIKMQRTW => "Effect unknown", A156GTV => 8, A156S => 4,
551 A156!AGSTV => "Effect unknown", D168AEHINQTVY => 8, D168F => 4,
552 D168CKLMPRSW => "Effect unknown", V170IT => 4,
553 V170!AITV => "Effect unknown", S174F => 4, S280P => 4, T344A => 4,
554 T358F => 4, G383S => 4, I426V => 4, T448A => 4, I472V => 4, V535A => 4,
555 P574AS => 4, V629I => 4 )
556 - genotype: '2'
557 reference: HCV2-JFH-1-NS3
558 region: NS3
559 rules: SCORE FROM ( TRUE => "Not indicated" )
560 - genotype: '3'
561 reference: HCV3-S52-NS3
562 region: NS3
563 rules: SCORE FROM ( TRUE => "Not indicated" )
564 - genotype: '4'
565 reference: HCV4-ED43-NS3
566 region: NS3
567 rules: SCORE FROM ( Q80!Q => "Effect unknown", T122!T => "Effect unknown",
568 R155K => 8, R155!KR => "Effect unknown", A156G => 8,
569 A156!AGM => "Effect unknown", D168!D => "Effect unknown",
570 V170!V => "Effect unknown" )
571 - genotype: '5'
572 reference: HCV5-SA13-NS3
573 region: NS3
574 rules: SCORE FROM ( TRUE => "Not indicated" )
575 - genotype: '6'
576 reference: HCV6-EUHK2-NS3
577 region: NS3
578 rules: SCORE FROM ( TRUE => "Not indicated" )
579 name: Simeprevir
580 - code: VEL
581 genotypes:
582 - genotype: 1A
583 reference: HCV1A-H77-NS5a
584 region: NS5a
585 rules: SCORE FROM ( K24MT => 4, K24CDFHILPVWY => "Effect unknown", M28AV => 4,
586 M28GT => 8, M28!AGILMTV => "Effect unknown", Q30EK => 8, Q30GHLRT => 4,
587 Q30ADFMNPW => "Effect unknown", L31F => 4, L31IMV => 8,
588 L31!FILMV => "Effect unknown", P32L => 8, P32!LP => "Effect unknown",
589 S38Y => 4, H58D => 8, H58NPR => 4, H58!CDHLNPQRY => "Effect unknown",
590 S85N => 4, A92K => 8, A92!AKPTV => "Effect unknown", Y93CHNRSW => 8,
591 Y93LT => 4, Y93ADEGIKMPQV => "Effect unknown", L153V => 4 )
592 - genotype: 1B
593 reference: HCV1B-Con1-NS5a
594 region: NS5a
595 rules: SCORE FROM ( Q24K => 4, L31IMV => 4, L31!FILMV => "Effect unknown",
596 P58T => 4, A92K => 8, A92!AEKPTV => "Effect unknown", Y93CRST => 4,
597 Y93HN => 8, Y93!CFHLNRSTY => "Effect unknown" )
598 - genotype: '2'
599 reference: HCV2-JFH-1-NS5a
600 region: NS5a
601 rules: SCORE FROM ( F28C => 4, F28S => 8, F28!CFLSV => "Effect unknown",
602 L31IM => 4, L31V => 8, L31!ILMV => "Effect unknown", P58A => 4, C92RS => 4,
603 C92T => 8, C92!ACKNRST => "Effect unknown", Y93F => 4, Y93HN => 8,
604 Y93!CFHLNSTY => "Effect unknown" )
605 - genotype: '3'
606 reference: HCV3-S52-NS5a
607 region: NS5a
608 rules: SCORE FROM ( S14E => 4, M28V => 4, M28T => 8,
609 M28!LMTV => "Effect unknown", A30HRV => 4, A30K => 8,
610 A30!AHKQRSV => "Effect unknown", L31FM => 8, L31PV => 4,
611 L31!FLMPV => "Effect unknown", S38PY => 4, S38!PSY => "Effect unknown",
612 V52M => 4, P58GLT => 4, P58!AGHLPST => "Effect unknown", H85Y => 4,
613 E92K => 4, Y93HS => 8, Y93NR => 4, Y93!FHNRSY => "Effect unknown",
614 S103DP => 4, A291P => 4, S379P => 4, S385Q => 4, R404K => 4, P407S => 4 )
615 - genotype: '4'
616 reference: HCV4-ED43-NS5a
617 region: NS5a
618 rules: SCORE FROM ( L28T => 8, L28!LMTV => "Effect unknown", L30R => 4,
619 M31V => 4, P32L => 4, H54R => 4, Y93CW => 4, Y93HNS => 8,
620 Y93!CHNSWY => "Effect unknown" )
621 - genotype: '5'
622 reference: HCV5-SA13-NS5a
623 region: NS5a
624 rules: SCORE FROM ( L31I => 4 )
625 - genotype: '6'
626 reference: HCV6-EUHK2-NS5a
627 region: NS5a
628 rules: SCORE FROM ( F28MV => 4, F28!AFMV => "Effect unknown", L31IM => 4,
629 L31V => 8, L31!ILMV => "Effect unknown", P32ALQR => 8,
630 P32!ALPQR => "Effect unknown", T58GH => 4, T58!AGHPST => "Effect unknown",
631 A92T => 4, T93AHNS => 4, T93!ACFHLNSTY => "Effect unknown" )
632 name: Velpatasvir
633 - code: VOX
634 genotypes:
635 - genotype: 1A
636 reference: HCV1A-H77-NS3
637 region: NS3
638 rules: SCORE FROM ( V36AG => 4, V36!AGILMV => "Effect unknown", Q41R => 4,
639 F43S => 4, Q80K => 4, R155G => 4, R155W => 8,
640 R155!AGKRTW => "Effect unknown", A156GIMPDV => 4, A156LT => 8,
641 A156!AGILMPSTV => "Effect unknown", D168AFITV => 4, D168KLR => 8,
642 D168CMPQW => "Effect unknown" )
643 - genotype: 1B
644 reference: HCV1B-Con1-NS3
645 region: NS3
646 rules: SCORE FROM ( V36AM => 4, V36!AIMSV => "Effect unknown", S122D => 4,
647 R155W => 8, R155!KRW => "Effect unknown", A156S => 4, A156TV => 8,
648 A156!ASTV => "Effect unknown", D168VY => 4,
649 D168!ADEGVY => "Effect unknown", V170A => 4 )
650 - genotype: '2'
651 reference: HCV2-JFH-1-NS3
652 region: NS3
653 rules: SCORE FROM ( F43V => 4, A156LTV => 8, A156!AGLTV => "Effect unknown" )
654 - genotype: '3'
655 reference: HCV3-S52-NS3
656 region: NS3
657 rules: SCORE FROM ( Q41K => 8, Q41R => 4, Q41!KQR => "Effect unknown",
658 V55A => 4, Q80K => 8, Q80!KQR => "Effect unknown", A156TV => 8,
659 A156!ATV => "Effect unknown", Q168R => 4, Q168!HKQR => "Effect unknown",
660 L175M => 4, A294V => 4 )
661 - genotype: '4'
662 reference: HCV4-ED43-NS3
663 region: NS3
664 rules: SCORE FROM ( Q41R => 4, A156LTV => 8, A156!ALTV => "Effect unknown",
665 D168ETV => 4, D168!DEKTV => "Effect unknown", T185S => 4, T382S => 4 )
666 - genotype: '5'
667 reference: HCV5-SA13-NS3
668 region: NS3
669 rules: SCORE FROM ( A156!A => "Effect unknown", D168AK => 4, D168HRY => 8,
670 D168!ADEHKRVY => "Effect unknown" )
671 - genotype: '6'
672 reference: HCV6-EUHK2-NS3
673 region: NS3
674 rules: SCORE FROM ( Q41KR => 4, Q41!KQR => "Effect unknown", Y56H => 4,
675 A156!A => "Effect unknown", D168AEH => 4,
676 D168!ADEHVY => "Effect unknown" )
677 name: Voxilaprevir