agv_navigation_ws/fast_gicp/thirdparty/nvbio/nvBowtie/bowtie2/quality_coeffs.cpp

/*
 * nvbio
 * Copyright (c) 2011-2014, NVIDIA CORPORATION. All rights reserved.
 * 
 * Redistribution and use in source and binary forms, with or without
 * modification, are permitted provided that the following conditions are met:
 *    * Redistributions of source code must retain the above copyright
 *      notice, this list of conditions and the following disclaimer.
 *    * Redistributions in binary form must reproduce the above copyright
 *      notice, this list of conditions and the following disclaimer in the
 *      documentation and/or other materials provided with the distribution.
 *    * Neither the name of the NVIDIA CORPORATION nor the
 *      names of its contributors may be used to endorse or promote products
 *      derived from this software without specific prior written permission.
 * 
 * THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND
 * ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
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 * SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
 */

#include <nvbio/basic/types.h>

namespace nvbio {
namespace bowtie2 {

/// map Phred quality scores into their maq equivalents
///
unsigned char s_phred_to_maq[] = {
	0,   0,  0,  0,  0,
	10, 10, 10, 10, 10, 10, 10, 10, 10, 10,
	20, 20, 20, 20, 20, 20, 20, 20, 20, 20,
	30, 30, 30, 30, 30, 30, 30, 30, 30, 30,
	30, 30, 30, 30, 30, 30, 30, 30, 30, 30,
	30, 30, 30, 30, 30, 30, 30, 30, 30, 30,
	30, 30, 30, 30, 30, 30, 30, 30, 30, 30,
	30, 30, 30, 30, 30, 30, 30, 30, 30, 30,
	30, 30, 30, 30, 30, 30, 30, 30, 30, 30,
	30, 30, 30, 30, 30, 30, 30, 30, 30, 30,
	30, 30, 30, 30, 30, 30, 30, 30, 30, 30,
	30, 30, 30, 30, 30, 30, 30, 30, 30, 30,
	30, 30, 30, 30, 30, 30, 30, 30, 30, 30,
	30, 30, 30, 30, 30, 30, 30, 30, 30, 30,
	30, 30, 30, 30, 30, 30, 30, 30, 30, 30,
	30, 30, 30, 30, 30, 30, 30, 30, 30, 30,
	30, 30, 30, 30, 30, 30, 30, 30, 30, 30,
	30, 30, 30, 30, 30, 30, 30, 30, 30, 30,
	30, 30, 30, 30, 30, 30, 30, 30, 30, 30,
	30, 30, 30, 30, 30, 30, 30, 30, 30, 30,
	30, 30, 30, 30, 30, 30, 30, 30, 30, 30,
	30, 30, 30, 30, 30, 30, 30, 30, 30, 30,
	30, 30, 30, 30, 30, 30, 30, 30, 30, 30,
	30, 30, 30, 30, 30, 30, 30, 30, 30, 30,
	30, 30, 30, 30, 30, 30, 30, 30, 30, 30,
	30, 30, 30, 30, 30, 30, 30, 30, 30, 30,
	30
};

/// map Solexa quality values to Phred scale
///
unsigned char s_solexa_to_phred[] = {
	0, 1, 1, 1, 1, 1, 1, 2, 2, 3,
	3, 4, 4, 5, 5, 6, 7, 8, 9, 10,
	10, 11, 12, 13, 14, 15, 16, 17, 18, 19,
	20, 21, 22, 23, 24, 25, 26, 27, 28, 29,
	30, 31, 32, 33, 34, 35, 36, 37, 38, 39,
	40, 41, 42, 43, 44, 45, 46, 47, 48, 49,
	50, 51, 52, 53, 54, 55, 56, 57, 58, 59,
	60, 61, 62, 63, 64, 65, 66, 67, 68, 69,
	70, 71, 72, 73, 74, 75, 76, 77, 78, 79,
	80, 81, 82, 83, 84, 85, 86, 87, 88, 89,
	90, 91, 92, 93, 94, 95, 96, 97, 98, 99,
	100, 101, 102, 103, 104, 105, 106, 107, 108, 109,
	110, 111, 112, 113, 114, 115, 116, 117, 118, 119,
	120, 121, 122, 123, 124, 125, 126, 127, 128, 129,
	130, 131, 132, 133, 134, 135, 136, 137, 138, 139,
	140, 141, 142, 143, 144, 145, 146, 147, 148, 149,
	150, 151, 152, 153, 154, 155, 156, 157, 158, 159,
	160, 161, 162, 163, 164, 165, 166, 167, 168, 169,
	170, 171, 172, 173, 174, 175, 176, 177, 178, 179,
	180, 181, 182, 183, 184, 185, 186, 187, 188, 189,
	190, 191, 192, 193, 194, 195, 196, 197, 198, 199,
	200, 201, 202, 203, 204, 205, 206, 207, 208, 209,
	210, 211, 212, 213, 214, 215, 216, 217, 218, 219,
	220, 221, 222, 223, 224, 225, 226, 227, 228, 229,
	230, 231, 232, 233, 234, 235, 236, 237, 238, 239,
	240, 241, 242, 243, 244, 245, 246, 247, 248, 249,
	250, 251, 252, 253, 254, 255
};

} // namespace bowtie2
} // namespace nvbio