| /dports/biology/freebayes/freebayes-1.3.5/src/ |
| H A D | LeftAlign.cpp | 25 bool leftAlign(BAMALIGN& alignment, string& referenceSequence, bool debug) { in leftAlign()
344 int countMismatches(BAMALIGN& alignment, string referenceSequence) { in countMismatches()
384 …bool stablyLeftAlign(BAMALIGN& alignment, string referenceSequence, int maxiterations, bool debug)… in stablyLeftAlign()
|
| H A D | Allele.h | 108 string referenceSequence; // reference sequence or "" (in case of insertions) variable
|
| /dports/biology/vcflib/vcflib-1.0.2/smithwaterman/ |
| H A D | LeftAlign.cpp | 30 string referenceSequence = baseReferenceSequence.substr(offset); in leftAlign() local
746 int countMismatches(string& querySequence, string& cigar, string referenceSequence) { in countMismatches()
783 bool stablyLeftAlign(string querySequence, string& cigar, string referenceSequence, int& offset, in… in stablyLeftAlign()
|
| /dports/biology/freebayes/freebayes-1.3.5/vcflib/smithwaterman/ |
| H A D | LeftAlign.cpp | 30 string referenceSequence = baseReferenceSequence.substr(offset); in leftAlign() local
746 int countMismatches(string& querySequence, string& cigar, string referenceSequence) { in countMismatches()
783 bool stablyLeftAlign(string querySequence, string& cigar, string referenceSequence, int& offset, in… in stablyLeftAlign()
|
| /dports/biology/smithwaterman/smithwaterman-2610e259611ae4cde8f03c72499d28f03f6d38a7/ |
| H A D | LeftAlign.cpp | 30 string referenceSequence = baseReferenceSequence.substr(offset); in leftAlign() local
746 int countMismatches(string& querySequence, string& cigar, string referenceSequence) { in countMismatches()
783 bool stablyLeftAlign(string querySequence, string& cigar, string referenceSequence, int& offset, in… in stablyLeftAlign()
|
| /dports/biology/vcflib/vcflib-1.0.2/src/ |
| H A D | vcfleftalign.cpp | 180 bool leftAlign(string& alternateSequence, Cigar& cigar, string& referenceSequence, bool debug = fal… in leftAlign()
459 bool stablyLeftAlign(string& alternateSequence, string referenceSequence, Cigar& cigar, int maxiter… in stablyLeftAlign()
|
| /dports/biology/freebayes/freebayes-1.3.5/vcflib-temp/src/ |
| H A D | vcfleftalign.cpp | 171 bool leftAlign(string& alternateSequence, Cigar& cigar, string& referenceSequence, bool debug = fal… in leftAlign()
450 bool stablyLeftAlign(string& alternateSequence, string referenceSequence, Cigar& cigar, int maxiter… in stablyLeftAlign()
|
| /dports/biology/freebayes/freebayes-1.3.5/vcflib/src/ |
| H A D | vcfleftalign.cpp | 171 bool leftAlign(string& alternateSequence, Cigar& cigar, string& referenceSequence, bool debug = fal… in leftAlign()
450 bool stablyLeftAlign(string& alternateSequence, string referenceSequence, Cigar& cigar, int maxiter… in stablyLeftAlign()
|
| /dports/biology/gatk/gatk-4.2.0.0/src/main/java/org/broadinstitute/hellbender/tools/funcotator/ |
| H A D | FuncotatorUtils.java | 894 private static String getAdjacentReferenceCodon(final ReferenceSequence referenceSequence, in getAdjacentReferenceCodon()
1513 public static String getAlternateSequence(final StrandCorrectedReferenceBases referenceSequence, in getAlternateSequence()
|
| /dports/www/moodle311/moodle/lib/google/src/Google/Service/ |
| H A D | Genomics.php | 1634 public $referenceSequence; variable in Google_Service_Genomics_CigarUnit
1653 public function setReferenceSequence($referenceSequence)
|
| /dports/www/moodle310/moodle/lib/google/src/Google/Service/ |
| H A D | Genomics.php | 1634 public $referenceSequence; variable in Google_Service_Genomics_CigarUnit
1653 public function setReferenceSequence($referenceSequence)
|
| /dports/www/moodle39/moodle/lib/google/src/Google/Service/ |
| H A D | Genomics.php | 1634 public $referenceSequence; variable in Google_Service_Genomics_CigarUnit
1653 public function setReferenceSequence($referenceSequence)
|
| /dports/www/orangehrm/orangehrm-4.9/symfony/plugins/orangehrmOpenidAuthenticationPlugin/lib/vendor/GoogleAPIClient/Service/ |
| H A D | Genomics.php | 1807 public $referenceSequence; variable in Google_Service_Genomics_CigarUnit
1826 public function setReferenceSequence($referenceSequence)
|
| /dports/sysutils/docker-registry/distribution-2.7.1/vendor/google.golang.org/api/google-api-go-client-9bf6e6e569ff/genomics/v1/ |
| H A D | genomics-api.json | 870 "referenceSequence": { object
|
| /dports/sysutils/docker-registry/distribution-2.7.1/vendor/google.golang.org/api/google-api-go-client-9bf6e6e569ff/genomics/v1beta2/ |
| H A D | genomics-api.json | 384 "referenceSequence": { object
|
| /dports/net-mgmt/bosun/bosun-0.9.0-preview/vendor/google.golang.org/api/genomics/v1/ |
| H A D | genomics-api.json | 1884 "referenceSequence": { object
|