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- aligned_alloc(3), alloca(3), calloc(3), free(3), malloc(3), posix_memalign(3), realloc(3), reallocf(3), valloc(3), mmap(3), munmap(3)
- memory management functions
- malloc(9), mallocarray(9), free(9), zfree(9), realloc(9), reallocf(9), malloc_usable_size(9), malloc_aligned(9), malloc_exec(9), MALLOC_DECLARE(9), MALLOC_DEFINE(9), malloc_domainset(9), malloc_domainset_aligned(9), malloc_domainset_exec(9), mallocarray_domainset(9)
- kernel memory management routines
- rman(9), rman_activate_resource(9), rman_adjust_resource(9), rman_deactivate_resource(9), rman_fini(9), rman_init(9), rman_init_from_resource(9), rman_is_region_manager(9), rman_manage_region(9), rman_first_free_region(9), rman_last_free_region(9), rman_release_resource(9), rman_reserve_resource(9), rman_make_alignment_flags(9), rman_get_start(9), rman_get_end(9), rman_get_device(9), rman_get_size(9), rman_get_flags(9), rman_set_mapping(9), rman_get_mapping(9), rman_set_virtual(9), rman_get_virtual(9), rman_set_bustag(9), rman_get_bustag(9), rman_set_bushandle(9), rman_get_bushandle(9), rman_set_rid(9), rman_get_rid(9), rman_set_type(9), rman_get_type(9)
- resource management functions
- valloc(3)
- aligned memory allocation function
- OPENSSL_malloc_init(3), OPENSSL_malloc(3), OPENSSL_aligned_alloc(3), OPENSSL_zalloc(3), OPENSSL_realloc(3), OPENSSL_free(3), OPENSSL_clear_realloc(3), OPENSSL_clear_free(3), OPENSSL_cleanse(3), CRYPTO_malloc(3), CRYPTO_aligned_alloc(3), CRYPTO_zalloc(3), CRYPTO_realloc(3), CRYPTO_free(3), OPENSSL_strdup(3), OPENSSL_strndup(3), OPENSSL_memdup(3), OPENSSL_strlcpy(3), OPENSSL_strlcat(3), OPENSSL_strtoul(3), CRYPTO_strdup(3), CRYPTO_strndup(3), OPENSSL_mem_debug_push(3), OPENSSL_mem_debug_pop(3), CRYPTO_mem_debug_push(3), CRYPTO_mem_debug_pop(3), CRYPTO_clear_realloc(3), CRYPTO_clear_free(3), CRYPTO_malloc_fn(3), CRYPTO_realloc_fn(3), CRYPTO_free_fn(3), CRYPTO_get_mem_functions(3), CRYPTO_set_mem_functions(3), CRYPTO_get_alloc_counts(3), CRYPTO_set_mem_debug(3), CRYPTO_mem_ctrl(3), CRYPTO_mem_leaks(3), CRYPTO_mem_leaks_fp(3), CRYPTO_mem_leaks_cb(3), OPENSSL_MALLOC_FAILURES(3), OPENSSL_MALLOC_FD(3)
- Memory allocation functions
- Align(1x)
- Afterstep Align
- CDKchdir(3), CDKchdir CDKgetDirectoryContents CDKopenFile CDKreadFile alignxy char2Chtype char2DisplayType checkForLink chtype2String deleteCursesWindow enableCursesMarkup eraseCursesWindow getListIndex getString justifyString mode2Filetype moveCursesWindow popupDialog popupLabel popupLabelAttrib selectFile setWidgetDimension stripWhiteSpace viewFile viewInfo cdk_util(3)
- Cdk utility functions
- OPENSSL_malloc_init(3ossl), OPENSSL_malloc(3ossl), OPENSSL_aligned_alloc(3ossl), OPENSSL_zalloc(3ossl), OPENSSL_realloc(3ossl), OPENSSL_malloc_array(3ossl), OPENSSL_aligned_alloc_array(3ossl), OPENSSL_calloc(3ossl), OPENSSL_realloc_array(3ossl), OPENSSL_free(3ossl), OPENSSL_clear_realloc(3ossl), OPENSSL_clear_realloc_array(3ossl), OPENSSL_clear_free(3ossl), OPENSSL_cleanse(3ossl), CRYPTO_malloc(3ossl), CRYPTO_aligned_alloc(3ossl), CRYPTO_zalloc(3ossl), CRYPTO_malloc_array(3ossl), CRYPTO_aligned_alloc_array(3ossl), CRYPTO_calloc(3ossl), CRYPTO_realloc(3ossl), CRYPTO_realloc_array(3ossl), CRYPTO_free(3ossl), OPENSSL_strdup(3ossl), OPENSSL_strndup(3ossl), OPENSSL_memdup(3ossl), OPENSSL_strlcpy(3ossl), OPENSSL_strlcat(3ossl), OPENSSL_strtoul(3ossl), CRYPTO_strdup(3ossl), CRYPTO_strndup(3ossl), OPENSSL_mem_debug_push(3ossl), OPENSSL_mem_debug_pop(3ossl), CRYPTO_mem_debug_push(3ossl), CRYPTO_mem_debug_pop(3ossl), CRYPTO_clear_realloc(3ossl), CRYPTO_clear_realloc_array(3ossl), CRYPTO_clear_free(3ossl), CRYPTO_malloc_fn(3ossl), CRYPTO_realloc_fn(3ossl), CRYPTO_free_fn(3ossl), CRYPTO_get_mem_functions(3ossl), CRYPTO_set_mem_functions(3ossl), CRYPTO_get_alloc_counts(3ossl), CRYPTO_set_mem_debug(3ossl), CRYPTO_mem_ctrl(3ossl), CRYPTO_mem_leaks(3ossl), CRYPTO_mem_leaks_fp(3ossl), CRYPTO_mem_leaks_cb(3ossl), OPENSSL_MALLOC_FAILURES(3ossl), OPENSSL_MALLOC_FD(3ossl), OPENSSL_MALLOC_SEED(3ossl)
- Memory allocation functions
- RNAforester(1)
- compare RNA secondary structures via forest alignment
- align(1)
- compute the global alignment of two protein or DNA sequences align0 - compute the global alignment of two protein or DNA sequences without penalizing for end-gaps
- align_image_stack(1)
- Align overlapping images for HDR or focus stack creation
- alimask(1)
- calculate and add column mask to a multiple sequence alignment
- bl_align_map_seq_exact(3), bl_align_map_seq_exact()(3)
- Locate little sequence in big sequence
- bl_align_map_seq_sub(3), bl_align_map_seq_sub()(3)
- Locate little sequence in big sequence
- bl_sam_buff_add_alignment(3), bl_sam_buff_add_alignment()(3)
- Add alignment to SAM buffer
- bl_sam_buff_alignment_ok(3), bl_sam_buff_alignment_ok()(3)
- Verify alignment quality
- bl_sam_buff_free_alignment(3), bl_sam_buff_free_alignment()(3)
- Free an alignment in a SAM buffer
- bl_sam_buff_shift(3), bl_sam_buff_shift()(3)
- Close gap after removing a SAM alignment
- bl_vcf_call_downstream_of_alignment(3), bl_vcf_call_downstream_of_alignment()(3)
- Return true if VCF call is downstream of alignment
- bl_vcf_call_in_alignment(3), bl_vcf_call_in_alignment()(3)
- Return true if VCF call is within alignment
- blastcl3(1)
- Basic Local Alignment Search Tool client
- bwa(1)
- Burrows-Wheeler Alignment Tool
- cmalign(1)
- align sequences to a covariance model
- cmbuild(1)
- construct covariance model(s) from structurally annotated RNA multiple sequence alignment(s)
- ddv(1)
- DeuxD-Viewer for multiple sequence alignment
- fasta(1)
- scan a protein or DNA sequence library for similar sequences tfasta - compare a protein sequence to a DNA sequence library, translating the DNA sequence library `on-the-fly'. lfasta - compare two protein or DNA sequences for local similarity and show the local sequence alignments plfasta - compare two sequences for local similarity and plot the local sequence alignments
- fasta36(1)
- scan a protein or DNA sequence library for similar sequences fastx36 - compare a DNA sequence to a protein sequence database, comparing the translated DNA sequence in forward and reverse frames. tfastx36 - compare a protein sequence to a DNA sequence database, calculating similarities with frameshifts to the forward and reverse orientations. fasty36 - compare a DNA sequence to a protein sequence database, comparing the translated DNA sequence in forward and reverse frames. tfasty36 - compare a protein sequence to a DNA sequence database, calculating similarities with frameshifts to the forward and reverse orientations. fasts36 - compare unordered peptides to a protein sequence database fastm36 - compare ordered peptides (or short DNA sequences) to a protein (DNA) sequence database tfasts36 - compare unordered peptides to a translated DNA sequence database fastf36 - compare mixed peptides to a protein sequence database tfastf36 - compare mixed peptides to a translated DNA sequence database ssearch36 - compare a protein or DNA sequence to a sequence database using the Smith-Waterman algorithm. ggsearch36 - compare a protein or DNA sequence to a sequence database using a global alignment (Needleman-Wunsch) glsearch36 - compare a protein or DNA sequence to a sequence database with alignments that are global in the query and local in the database sequence (global-local). lalign36 - produce multiple non-overlapping alignments for protein and DNA sequences using the Huang and Miller sim algorithm for the Waterman-Eggert algorithm. prss36, prfx36 - discontinued; all the FASTA programs will estimate statistical significance using 500 shuffled sequence scores if two sequences are compared
- get_align_matrix(3)
- Rotates a matrix to align it along specified coordinate vectors. Allegro game programming library
- get_align_matrix_f(3)
- Floating point version of get_align_matrix(). Allegro game programming library
- hmmalign(1)
- align sequences to a profile
- hmmbuild(1)
- construct profiles from multiple sequence alignments
- lalign(1)
- compare two protein or DNA sequences for local similarity and show the local sequence alignments plalign,flalign - compare two sequences for local similarity and plot the local sequence alignments
- libowfat_buffer_putalign(3), buffer_putalign(3)
- write binary data to buffer
- libowfat_buffer_putsalign(3), buffer_putsalign(3)
- write ASCIIZ string to buffer
