Databases
StackOverflow2013
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POHow to replace some digits with letters in each line of a file (according to the letter that exist in column 5th and 6th of that line)?
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  1. POHow to replace some digits with letters in each line of a file (according to the letter that exist in column 5th and 6th of that line)?
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    copied!<p>I have a file which is space delimited which looks like this:</p> <pre><code>probeset_id submitted_id chr snp_pos alleleA alleleB 562_201 562_202 562_203 562_204 562_205 562_206 562_207 562_208 562_209 562_210 562_211 562_212 562_213 562_214 562_215 562_216 562_217 562_218 562_219 562_220 562_221 562_222 562_223 562_224 562_225 562_226 562_227 562_228 562_229 562_230 562_231 562_232 562_233 562_234 562_235 562_236 562_237 562_238 562_239 562_240 562_241 562_242 562_243 562_244 562_245 562_246 562_247 562_248 562_249 562_250 562_251 562_252 562_253 562_254 562_255 562_256 562_257 562_258 562_259 562_260 562_261 562_262 562_263 562_264 562_265 562_266 562_267 562_268 562_269 562_270 562_271 562_272 562_273 562_274 562_275 562_276 562_277 562_278 562_279 562_280 562_281 562_283 562_284 562_285 562_289 562_291 562_292 562_294 562_295 562_296 562_400 562_401 562_402 562_403 562_404 562_405 AX-75448119 Chr1_41908741 1 41908741 T C 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 1 1 1 1 1 1 0 1 0 0 0 0 2 2 0 0 0 0 0 1 0 0 0 0 0 AX-75448118 Chr1_41908545 1 41908545 T A 2 2 2 2 2 2 2 2 2 0 0 0 0 0 0 0 0 0 0 0 1 2 2 2 2 2 2 2 2 2 0 0 0 0 0 1 1 0 1 1 0 0 0 0 0 0 1 2 2 2 0 1 1 1 2 -1 1 2 0 0 2 1 1 0 1 0 1 2 1 0 0 1 2 2 1 2 2 0 1 2 2 2 2 2 2 0 1 0 0 0 1 2 2 2 2 0 </code></pre> <p><strong>I want to replace the digits by letters according to column 5th &amp; 6th</strong></p> <ol> <li>Replace <code>0</code> by <code>$5 $5</code> (two repeat of column 5th) e.g if the 5th column is <code>T</code> replace <code>0</code> by <code>T T</code></li> <li>Replace <code>2</code> by <code>$6 $6</code> (two repeat of column 6th) e.g if the 6th column is <code>C</code> replace <code>2</code> by <code>C C</code></li> <li>Replace <code>1</code> by <code>$5 $6</code> e.g if the 5th and 6th columns are <code>T</code> and <code>C</code>, respectively, replace <code>1</code> by <code>T C</code></li> <li>Replace <code>-1</code> by <code>? ?</code> </li> </ol> <p>I have to note that column 5th and 6th can be T, A, C, and G</p> <p>So what I would like to have as output is:</p> <pre><code>AX-75448119 Chr1_41908741 1 41908741 T C T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T T C T T T T T T T C T C T C T C T C T C T T T C T T T T T T T T C C C C T T T T T T T T T T T C T T T T T T T T T T AX-75448118 Chr1_41908545 1 41908545 T A A A A A A A A A A A A A A A A A A A T T T T T T T T T T T T T T T T T T T T T T T A A A A A A A A A A A A A A A A A A A T T T T T T T T T T T A T A T T T A T A T T T T T T T T T T T T T A A A A A A A T T T A T A T A A A ? ? T A A A T T T T A A T A T A T T T A T T T A A A T A T T T T T A A A A A T A A A A A T T T A A A A A A A A A A A A A T T T A T T T T T T T A A A A A A A A A T T </code></pre> <p>I don't know if this is possible by awk or not! if not I will give a try in python but I would rather a Linux command like awk (which is much faster than python because I'm using a file which has 1.2 million lines and my computer can swap by python!)</p>
 

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