| 00:00 - 00:03 | Scientists are trying to introduce a new alignment storage format |
| 00:04 - 00:05 | So far, they have released it at EBI |
| 00:05 - 00:07 | Sanger and ENA |
| 00:08 - 00:12 | From what we can tell they want to do away with BAM and replace it with CRAM |
| 00:12 - 00:15 | but beyond that, it's not clear what they want. |
| 00:17 - 00:19 | We'll just use Samtools |
| 00:19 - 00:21 | and ignore all that |
| 00:24 - 00:26 | Sir... |
| 00:27 - 00:28 | They... |
| 00:31 - 00:33 | They have released their own version of Samtools |
| 00:34 - 00:36 | They are calling it the official 1.0 release |
| 00:53 - 00:58 | Everyone who tweeted about #CRAM get out now. |
| 01:13 - 01:15 | What the hell are they thinking? |
| 01:15 - 01:17 | Is this what bioinformatics needs? |
| 01:18 - 01:23 | Another binary file format? |
| 01:25 - 01:28 | What do they think is going to happen? |
| 01:29 - 01:31 | We're all back at square one! |
| 01:31 - 01:34 | Isn't it enough that so few understand even the current formats? |
| 01:34 - 01:37 | That they have to go Biostars and ask others what does flag 99 actually mean? |
| 01:37 - 01:40 | Sheep asking to be led to the slaughter |
| 01:40 - 01:42 | Sir, the people need better compression. |
| 01:42 - 01:46 | Is that any excuse to charge in and support something without aim? |
| 01:46 - 01:48 | Sir, they are frustrated and their hard drives are full |
| 01:48 - 01:52 | So now they get 15% more storage but what of it? |
| 01:53 - 01:54 | It is just another obtuse data format |
| 01:56 - 01:57 | The same thing as usual |
| 01:57 - 02:00 | "Yes, we understand your problems!" |
| 02:00 - 02:03 | "Yes, we will fix the system!" |
| 02:04 - 02:08 | Are you kidding me? |
| 02:08 - 02:13 | They need to fix the real problems of bioinformatics. |
| 02:14 - 02:16 | Only in bioinformatics do people need to take week long courses |
| 02:17 - 02:21 | Just to figure out if their data is total loss or not |
| 02:27 - 02:29 | They're looking for an easy fix |
| 02:30 - 02:34 | If only they would learn from history |
| 02:34 - 02:36 | People can't support something they don't understand |
| 02:41 - 02:42 | Too much of this... |
| 02:43 - 02:47 | Too many tools will now have to make choices to support this or that format |
| 02:48 - 02:53 | More options, binary streaming, lossy compression |
| 02:54 - 02:56 | Yeah. That'll work. |
| 02:56 - 02:59 | Show me a biologist that willingly chooses a lossy compression! |
| 03:00 - 03:02 | Or in personal genomics a doctor who will want to toss out data? |
| 03:04 - 03:07 | It's okay Emily, we all retweeted. |
| 03:14 - 03:16 | Graduate students will have to adopt it. |
| 03:19 - 03:23 | What options do they have really, they can't say no |
| 03:25 - 03:26 | They won |
| 03:31 - 03:33 | New topic in the lesson plan |
| 03:40 - 03:46 | Once the minION gets adopted it wont' matter anyhow |
| 03:46 - 03:49 | When you have few long reads there is no point in using CRAM anyhow |
| 03:53 - 03:56 | We'll see how this all turns out. |
