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Generally, the advantages of WGS are that it needs fewer sequencing libraries, has a simpler workflow, and is therefore faster while clone-by-clone approaches are usually preferred when the genome is sufficiently large and complex that WGS assembly is problematic.
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The resulting gene assemblies were problematic requiring extensive optimization of the PCR conditions in each step.
However, when the fungal and algal portions of the lichen cannot be easily dissected, as with Physcia cf. stellaris, the assembly is more problematic.
Therefore, it seemed probable that sequence reads spanning the entire 300 bps would be numerous in the database, in which case it would be possible to cover the whole family without having to rely on assembly of contigs, which is problematic when dealing with gene families.
However, the assembly of metagenomic sequencing reads is problematic.
This pipeline also identifies whether a read is repetitive, a singleton or too short (< 50 base pairs) to be used in the computation, or even if it is problematic for assembly.
However, the pyrosequencing-derived read lengths on the GS20 and FLX platform are substantially shorter than conventional Sanger-based sequencing which is problematic for assembly into a non-redundant set of consensus sequences.
Again, this is problematic.
Current practise is problematic.
The strategy is problematic.
So torture is problematic.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com