SPAdes (software)

[1][2] SPAdes works with Ion Torrent, PacBio, Oxford Nanopore, and Illumina paired-end, mate-pairs and single reads.

[3] Studying the genome of single cells will help to track changes that occur in DNA over time or associated with exposure to different conditions.

[4][5] SCS has an advantage over sequencing DNA extracted from large number of cells.

[6] Experimental and computational technologies are being optimized to allow researchers to sequence single cells.

For instance, amplification of DNA extracted from a single cell is one of the experimental challenges.

However, paired de Bruijn works well on paired-end reads with fixed insert size.

These sets of biedges are involved in the estimation of distances between edges paths between k-mers α and β.

SPAdes identifies these based on graph topology, the length and coverage of the non-branching paths included in them.

This helps to remove low coverage h-paths occurring from sequencing errors and chimeric reads but not from repeats.

SPAdes is composed of the following tools:[1] A study[18] compared several genome assemblers on single cell E. coli samples.