Here are 5 top tools used in bioinformatics
Bowtie2:
Source description: is an ultrafast and memory-efficient tool for aligning sequencing reads to long reference sequences. It is particularly good at aligning reads of about 50 up to 100s or 1,000s of characters, and particularly good at aligning to relatively long (e.g. mammalian) genomes (http://bowtie-bio.sourceforge.net/bowtie2/index.shtml)
Bismark:
Source description: Bismark is a program to map bisulfite treated sequencing reads to a genome of interest and perform methylation calls in a single step. (https://www.bioinformatics.babraham.ac.uk/projects/bismark/)
BWA:
Source description: is a software package for mapping low-divergent sequences against a large reference genome, such as the human genome. (http://bio-bwa.sourceforge.net/)
TopHat:
Source description: is a fast splice junction mapper for RNA-Seq reads. It aligns RNA-Seq reads to mammalian-sized genomes using the ultra high-throughput short read aligner Bowtie, and then analyzes the mapping results to identify splice junctions between exons.
GenomeMapper:
SOurce description: A short read mapping tool designed for accurate read alignments. It quickly aligns millions of reads either with ungapped or gapped alignments. It can be used to align against multiple genomes simulanteously or against a single reference. (https://bio.tools/genomemapper)
References
http://bowtie-bio.sourceforge.net/bowtie2/index.shtml
https://www.bioinformatics.babraham.ac.uk/projects/bismark/
http://bio-bwa.sourceforge.net/
