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In the case of an ambiguous match Bowtie and MAQ randomly assign reads to one of the targets, which results in a higher proportion of incorrectly mapped reads (Figures 2C, 2E).
The observed distribution of the SNPs identified along the GA reads (Figures 1, 2) decreases towards the end of the reads indicating that we effectively filtered against false positives by increasing the stringency of removing low quality bases towards the end of the sequences.
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TheHamiltonian of our coupled CPB-NR system reads: Figure 1 Schematic diagram of an NR capacitively coupled to a CPB.
Therefore, some of the sequenced data still remains unclassified (∼14% of total sequenced reads) (Figure 2).
Out of the estimated 3700 PCR-products, 3465 generated more than 20 reads (figure 4).
The AUC score was calculated by randomly selecting 1 million to 6 million reads (Figure 3B).
Though, in the taxonomic tree at genus level (Campylobacter, Lactococcus and Pseudomonas), the number of assigned reads virtually equals the number of sampled reads (Figure 7).
The shortest composite reads have the best quality scores, still, the average error rate remained <1% across 95% of 250 bp reads (Figure 5).
For a standard sequencing experiment, about 28% of insertions are predicted to have a unique signature of two adjacent positions containing mutant reads (Figure 5C).
When libraries were pooled together, MID2 was overrepresented in terms of generated sequences, resulting in almost 60 80% of the total number of reads (Figure S1).
For nucleotides in the aligned region, SHERA recalculates the error probability of each bp, given the base call data from both reads (Figure 3B).
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Since I tried Ludwig back in 2017, I have been constantly using it in both editing and translation. Ever since, I suggest it to my translators at ProSciEditing.

Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com