Flye
is a de novo assembler for single molecule sequencing reads
(
https://github.com/fenderglass/Flye
)
SMARTdenovo
is an u
ltra-fast de novo assembler using long noisy reads
(
https://github.com/ruanjue/smartdenovo
)
bwa
- Burrows-Wheeler Alignment Tool for mapping low-divergent sequences against a large reference genome
(
http://bio-bwa.sourceforge.net/
)
FREEC
is a tool for the detection of copy-number changes and allelic imbalances using deep-sequencing data
(
https://docs.hpc.qmul.ac.uk/apps/bio/freec/
)
MergeMap
constructs accurate consensus genetic maps from a set of individual genetic maps using DAGs
(
http://www.oligospawn.org/mgmap/
)
Canu
is a hierarchical assembly pipeline for high-noise single-molecule sequencing
(
https://github.com/marbl/canu
)