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October Software Thread

This subreddit used to get the same 10+ questions a day, over and over again of "What software should I use?"

TL;DR - you want DaVinci Resolve Resolve, Hitfilm Express or Kdenlive.

Seriously read this top section

Sorry about this wall of text.

These three things are crucial (spoiler tag to make you read):

  1. Footage type (See below)
  2. Hardware/System specs. Just saying "HD or 4k" doesn't help
  3. Even if you don't want something "fancy", you still need to read this

Much of this comes from our Wiki page on software.

If you get to the end of this post and you need more, check there first.

For example, MOBILE EDITING SOLUTIONS are in the wiki.

Nobody is an expert on all of the tools.

Trying it with your system and footage is the best way to work.

1 - Footage type. Know what you're cutting.

FOOTAGE TYPE AFFECTS playback.
Action cam, Mobile phone, and screen recordings can be difficult to edit, due to h264/5 material (especially 1080p60 or 4k) and Variable Frame rate.
Footage types like 1080p60, 4k (any frame rate) are going to stress your system.
When your system struggles, the way that the professional industry has handled this for decades is to use Proxies.
Proxies are a copy of your media in a lower resolution and possibly a "friendlier" codec.
It is important to know if your software has this capability. A proxy workflow more than any other feature, is what makes editing high frame rate, 4k oand h264/5 footage possible.

See our wiki about

* Variable Frame Rate

* Why h264/5 is hard

* Proxy editing

2- Key Hardware suggestions, before you ask.

The suggested hardware minimums for the "average" user
  • A recent i7 (due to intel Quick Sync)
  • 16GB of RAM
  • A GPU with 2+ GB of GPU RAM
  • An SSD (for cache files.)
Can other hardware work? Certainly - but may not necessarily provide a great experience.
GPUS do not help with the codec/playback of media but do help with visual effects.
We have a dedicated hardware thread monthly. Hardware questions belong there.

3- I Just need something simple. I don't need all those effects.

Sadly, having super easy to use software means engineering teams.
iMovie came with your Mac and is by far the easiest to use editor for either platform.
There isn't a lightweight, easy to use free/inexpensive editor that we'd recommend for windows.
We wish iMovie was available for windows. The closest we've seen on windows is Olive editor (open source)

Okay, so what do you suggest?

Editing

  • DaVinci Resolve - Needs a strong video card/hardware. Max size (free) is UHD. Full version for $299. Mac/Win/Linux. Full proxy workflow. An excellent tool if your hardware can handle it.
  • Hit Film Express - freemium - no watermark. Extra features at a price. Mac/Win. Full proxy workflow. UGH. As of 6/2020 it seems they have a price for some very, VERY basic capabilities (like cropping and text.) We're not sure that HFE will make the next month versionof this post for that reason.
  • Kdenlive -Open source with proxy workflows. Windows/Linux. Full proxy workflow. There are other open source tools, but likely, if you're going down this path, you'll need a proxy workflow. # Olive Editor Easier than Kdenlive - but in the middle of a major rewrite - may be unstable.

Compression

  • Shutter Encoder is a free, cross platform Compression tool. It's a GUI front end to FFMPEG (a command-line utility). Like the other tool we often recommend, handbrake, it can convert media.
    • It can do a variety of conversions, including H264, HEVC, ProRes and DNxHD/HR.
    • It can trim a video without re-encoding (it's not an editor, a trimmer in this case)
    • It can convert a Variable Frame Rate video to Constant frame rate in h264 (but we'd recommend to convert to a post friendly codec)

Mobile

  • iOS Free: iMovie
  • IOS Paid: Lumafusion
  • Android (and Chromebooks that run android): Kinemaster

Before you reply and ask for other advice, our wiki has other tools, including tools a list of other editors and mobile solutions

submitted by greenysmac to VideoEditing

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Machine Learning for Protein Design & Yeast Make Medicines from Nightshade (and other news this week in synthetic biology).

Hey everyone, every week I compile research and news on synthetic biology. This week, I changed things up big time. It is no longer a list; I now explain each research finding in at least one or two sentences. Hope you enjoy! I would totally appreciate your feedback, too.

🧬Featured Research

Biosynthesis of Plant-Based Medicines in Baker’s Yeast (Open Access)

In a tour de force of metabolic engineering, Prashanth Srinivasan and Christina Smolke at Stanford have engineered baker’s yeast to produce tropane alkaloids. These compounds, which are normally extracted from nightshade to treat neuromuscular disorders, were biosynthesized from starting sugars and amino acids. Constructing the synthetic pathway required more than twenty distinct proteins-taken from yeast, bacteria, plants and animals-targeted to six sub-cellular compartments, to produce the medicines. The study was published in Nature and has been widely covered in the media, including as a Nature story and in a Stanford press release.

Assembling 35(!) Pieces of DNA in a Single Tube (Open Access)

In 2018, I read a stunning paper by a team of scientists from New England Biolabs and Ginkgo Bioworks, describing an improvement to Golden Gate DNA assembly. In that paper, they described the efficient, accurate assembly of 24 DNA fragments in a single tube. Now, many of those same authors have built upon their prior study, reporting the routine assembly of 35 DNA fragments in a single reaction. To optimize the system, the authors used DNA sequencing to explore possible combinations of restriction enzymes, and then “incorporated these findings into a suite of webtools” to design more efficient DNA assembly reactions. This study was published in PLoS One.

Minicells, with Miniature Genomes, Can Build Themselves (Open Access)

Can a cell be built from scratch? A lot of people think so, and they may not be far off. A new study in Nature Communications reports that liposomes-basically sacs of phospholipids that enclose water-can be packed and programmed with a genetic blueprint. Liposomes were packaged with a loop of DNA encoding seven different genes, together comprising a biosynthetic pathway to build phospholipids. By using “fluorescence-based probes”, the researchers were able to “directly visualize membrane incorporation of synthesized phospholipids at the single vesicle level”-in other words, miniature cells, with miniature genetic programs, can help build themselves.

Fine-Tuning Gene Expression in Plants (Open Access)

Promoters are short sequences of DNA upstream of a gene that play a major role in determining how much of a protein is produced. But the rules underpinning promoters, and a gene’s expression level, have proven difficult to unravel. This week, the Patron lab reported an experimental system to rigorously investigate how different traits in a promoter-its sequence and positioning of regulatory elements, for example-impact the expression level of a gene. With these findings, a suite of “minimal” promoters were developed that can be used to more precisely tune a gene’s output. The study was published in Nucleic Acids Research. Read the press release from the Earlham Institute.

Software Package Simplifies Inter-Lab Measurements (Open Access)

The International Genetically Engineered Machine competition, or iGEM, has brought together young synthetic biology students for nearly two decades. A cornerstone of that competition is the measurement lab, whereby students carefully measure engineered cells and report their results to study how those measurements differ across laboratories and devices. A new study, in ACS Synthetic Biology, builds upon the dire need for standardization in synthetic biology, offering a software tool (written for R) that can calibrate fluorescent and plate reader measurements.

🧫 Rapid-Fire Highlights

More research & reviews worth your time

📰 #SynBio in the News

submitted by Mailyk to biotech