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ED performed quality analysis of sequences and the first alignment for controlling the read mappability on the reference genome.
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Finally, the tools based on Direct fragmentation do not directly exploit paired-end information; they fragment every read before the first alignment and find fusion candidates aligning those fragments to a genomic reference.
When the RFLP and RAP2 sequences overlapped by >70% in the first alignment and the two sequences showed >70% identity, the physical position of the RAP2 transcript on the rice genome map was identified as the position of the RFLP marker.
Then, because the EPI slice-selection step is the same as for the anatomical, remove the z and size-z parameters from the affine adjustment set, and align the EPI data using the first alignment as the starting set.
If the ratio of correctly aligned bases between any such alignment and the second alignment was >0.8 and the subject regions didn't overlap, then that part was considered to be ambiguously mapped.
The "lookahead test" and the "third alignment going inwards" options were also selected for the genome processing in order to more stringently identify IR sequences.
The first alignment is between a sequence in atomic coordinate record (SEQATM) and SEQRES record of a PDB file.
The first alignment page enables a switch of axes using 90-degree rotations (e.g., coronal to sagital).
The first alignment is based on NAST which removes non-16S pyrotags in the returned alignment.
The first alignment shown on the left keeps 18 areas contiguous whereas the second alignment shown on the right keep 22 areas contiguous.
The first alignment was a baseline version where only statistical data were used as input resources.
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CEO of Professional Science Editing for Scientists @ prosciediting.com