The phrase "alignment software is" is correct and usable in written English.
You can use it when introducing or describing a type of software that is used for alignment purposes in various contexts, such as technology or engineering.
Example: "Alignment software is essential for ensuring that all components of the system work together seamlessly."
Alternatives: "software for alignment is" or "alignment-related software is".
Comparisons of operational taxonomic units (OTUs) based on V9 domains and (almost) complete SSU rRNA sequences are almost impossible on large data sets of sequences because none of the multiple sequence alignment software is able to properly align SSU rRNA sequences within their divergent domains, and this problem is exacerbated for short divergent tag sequences (Guillou & Christen unpublished).
In contrast to other packages (e.g. Naito et al., 2014), no other alignment software is used.
Next-generation sequencing results from bead-based aptamer libraries have demonstrated that traditional DNA/RNA alignment software is insufficient.
Proper selection of the input parameters for the alignment software is essential to obtain optimum alignment results in chromatographic profiling experiments.
Inputs for the alignment software were chromatograms of ten different individuals analysed both spiked and non-spiked (see " Control samples" for details) and the set of parameters for peak detection and alignment.
The number of single-gene families passing the PTP test in the four-taxon data sets did not change significantly when either an alternative homology assignment strategy or alignment software was used (see table 1), suggesting that the small number of single-gene families arising from these analyses does not stem from methodological biases.
We found 6 loci in the reference genome to which sequence reads from inserts were frequently mapped, probably erroneously, by alignment software: these were either L1 sequence or particularly long polyA runs.
As the accuracy of traditional multiple sequence alignment software has been questioned (e.g., Löytynoja and Goldman 2008), the single- and multigene families in our four-taxon data sets were also aligned using PRANK (Löytynoja and Goldman 2008).
A more complete list of currently available and freely distributed structural alignment software can be found in structural alignment software.
Several types of alignment software have been developed to map bisulfite converted reads [ 23].
The SHRiMP alignment software may be downloaded from http://compbio.cs.toronto.edu/shrimp/.toronto.edu/shrimp/
