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The video clips were processed in an AVI format with final cut.
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Clips are processed by the Broadcast Studio in the Yale Center for Teaching and Learning.
So the best audio clips are processed in a production truck and played later with an analyst's commentary.
In order to detect specific temporal signal characteristics, the considered audio clips are processed in short time frames of 40-ms duration.
The software can analyze video faster than a human could watch it; in the demonstration, the 3.5 minute clip was processed in just 10 seconds.
Then each clip is processed using neural networks as Fig. 5b.
The PAR-CLIP reads were processed as described before (Lebedeva et al, 2011).
The 4D images produced by the time-lapse acquisitions were processed, clipped, examined and interpreted using the Imaris software.
Reads were processed by clipping adapter sequences and quality trimming from the 3′ end to the first base with phred-like quality 30, and then aligned to hg19 using BWA [Li and Durbin, 2009].
In several preprocessing steps, using pregap4 from the Staden package (19) and cross_match from phrap (http://www.phrap.com/), the raw EST reads were processed to clip all uninformative sequence parts, including poor quality regions, vector and adapter fragments, and poly-A/-T tails.
Samples were processed for HITS-CLIP as previously described (Licatalosi et al., 2008) using an anti-Flag antibody (F3165; Sigma), and omitting 3′ linker ligation in favor of direct labeling of protein-bound RNA with P-γ-ATP.
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