SA RNA implementation first version
Final version SA RNA
Adds some counters and it considers the reads with multiple mappings as unmapped reads
Improves the function to compute the read covering area in a given CAL
Implements a function to search prefixes in a given region in the genome
Sets DEFAULT_PAIR_MIN_DISTANCE to 200, instead of 50
Removes false-positive mappings when using --bam-format parameter
Adds CAL filter by num. gaps and mismatches
Improves the mapping quality function and updates SAM flags
SA Rna new writer
Includes adapter support in FastQ files: it removes adapters before mapping
SA RNA time optimization
Fixes bug when cutting adapter quality
Removes some comments
Trying Metaexon skip list
Times and calls number
Extrae commented out
Metaexon linked-list implementation
Timers removed
Added Metaexon-merge