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For these analyses we removed shorter sequences from the datasets, aiming to preserve as much information as possible during the haplotype inference analyses.
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Some worked in the carding room, some in the weaving department, and some operated the combing machines, where they removed short lengths of hair or wool called noils.
The second size selection effectively removed short fragments while keeping long fragments in the agarose strips.
The MG-RAST pipeline assessed the quality of sequences, removed short sequences (multiplication of standard deviation of length cutoff of 2.0) and removed sequences with ambiguous bp (non-ACGT; maximum allowed number of ambiguous base pair was set to 5).
A possible explanation could be failure to detect STRs in really short genes, but when we removed short genes (<1000 bases) from the analysis, the results were not affected (data not shown).
As our genomic DNA derived from a population of nematodes of unknown genetic diversity, we removed short contigs that mapped entirely within larger ones using Cd-hit (v.4.5.7) [ 38] at a 95% cutoff.
We removed short reads mapped with quality alignment scores of zero (Q0), which correspond to reads mapped to two or more locations on the reference genome with identical quality alignment scores.
The dataset was first averaged to obtain daily values and remove shorter periods in the signals.
The F10.7 and Ap indexes were used to remove shorter variability of the parameter.
The tsunami record was compared with a numerically-simulated tsunami after removing shorter and longer periods of waves.
The RNA was gel purified to remove shorter fragments.
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