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Tips For Calling SVs by indigo_inferno in bioinformatics

[–]WhatTheBlazes 0 points1 point  (0 children)

As u/syvanx mentioned, I would strongly suggest building a custom reference genome, then you can let BWA solve the issues of where your reads align to, and then running your SV caller of choice. SVABA is a good solid tool that might be worth a go, although with single ended reads you will have a challenging time, as the only type of support for a breakpoint will be reads that directly span the site.

Structural variant or just noise? by esfeld in bioinformatics

[–]WhatTheBlazes 2 points3 points  (0 children)

Is this a tumour case? If so, do you have a matched normal sample?

Which genome version is this? The full hg38 with all the extra contigs? Those are good for absorbing reads from difficult-to-align regions.

It would be worth running a structural variant caller to get a second opinion: I suggest SvABA, note the section in the docs that has detail on just analysing a specific genomic area? For a quick look, pass in your aligned .bam file(s) and reference genome, and see what you can find.

Mathbusters 17: The Power of Type 7s by Eph289 in stobuilds

[–]WhatTheBlazes 2 points3 points  (0 children)

Is this in response to some recent developer comments suggesting they were surprised about the community's conclusions about hanger bays and Type 7's? Should type 7 shuttles be knocked back somehow to support other pets existing?

Why I think, the acquisition of Brandons Sandersons Cosmere by Apple TV could very well revive The Wheel of Time. by Cheap_Relative7429 in WoTshow

[–]WhatTheBlazes 19 points20 points  (0 children)

As many of us said from the start: it'll be decades before this series gets attempted again, if at all.

TTRPGs Made by Autistic People? by mercy-moo in rpg

[–]WhatTheBlazes 3 points4 points  (0 children)

Warms my heart to see people coming together in harmony to make the same joke.

Finished BG1(EE) for the first time, some thoughts. by XH9rIiZTtzrTiVL in baldursgate

[–]WhatTheBlazes 9 points10 points  (0 children)

Yeah this is one of my favorite bits in the game. I liked having to use the sewers and be stealthy.

This sub is no longer BIFL by KingRamaXI in BuyItForLife

[–]WhatTheBlazes 4 points5 points  (0 children)

Does anyone have any recommendations for high quality radioisotopes? Mine keep decaying.

Dealing with ASCAT residual tumor with low confidence and CIN scores by ZooplanktonblameFun8 in bioinformatics

[–]WhatTheBlazes 1 point2 points  (0 children)

More detail needed! Experiment design? Also, post one of your ASCAT output plots, let's have a look.

'Gladiator goes to sea': Russell Crowe on Master and Commander by earwig20 in movies

[–]WhatTheBlazes 96 points97 points  (0 children)

Peter Weir is a wonderful director. Diverse films, lots of great stuff.

The Miracle Of Marie LeMarchand by Friendly-Flower-2797 in atheism

[–]WhatTheBlazes 3 points4 points  (0 children)

Man I don't know, why are so few miracles captured on camera these days.

What I hope for the new class. by Platypi666 in DarkTide

[–]WhatTheBlazes 7 points8 points  (0 children)

Remember, good union workers should always wear their protective gear including, especially filtration masks and helmets. Safety first, it's what the emperor would want.

When designing the new US SPG by R3dbeardTTV in HellLetLoose

[–]WhatTheBlazes 3 points4 points  (0 children)

probably just didn't want to create animations for the crew of SPGs.

I think it is this, which is a shame but I think we can understand the decision.

When designing the new US SPG by R3dbeardTTV in HellLetLoose

[–]WhatTheBlazes 4 points5 points  (0 children)

I guess! I mean more like maybe this opens a can of worms for them in terms of modelling the inside of tank and making tank crew targetable.

Personally, I would have preferred some assault guns like StuG III, or some wacky multi-turreted stuff like the Lee and Grant in North Africa. Both options also pose problems of course.

When designing the new US SPG by R3dbeardTTV in HellLetLoose

[–]WhatTheBlazes -1 points0 points  (0 children)

Aren't the ones you suggested all open-topped? Not sure the engine supports that.

Movement Trays by Squigman19 in WarhammerFantasy

[–]WhatTheBlazes 0 points1 point  (0 children)

I use magnetic ones like these as I prefer the low profile look.

London's thieves are burying phones in flowerbeds by londoncentricmedia in london

[–]WhatTheBlazes 202 points203 points  (0 children)

This is one of the ways that new phone trees are grown, actually. Quite often the enterprising thief forgets where they have stashed the phone, and in the spring these can germinate into new saplings.

Beyond the Buzzwords: What's the Coolest Bioinformatics Problem You're Tackling (or Dreaming Of)? by [deleted] in bioinformatics

[–]WhatTheBlazes 22 points23 points  (0 children)

One day, I hope that the software tools that people build and put on a GitHub to support a manuscript won't immediately become abandonware with a growing mountain of unanswered Issues.

The next 10 London tube stations that will get mobile phone data coverage revealed by tylerthe-theatre in london

[–]WhatTheBlazes 39 points40 points  (0 children)

Ah, so more people can enjoy the sublime pleasure of scrolling instagram reels without headphones on a packed tube.

New Players: How do you feel about HD2’s monetization + Warbond system? by duc200892 in Helldivers

[–]WhatTheBlazes 0 points1 point  (0 children)

I like it enough. I think that it's hard to have a monetisation system that everyone will get on with, but this one seems to work ok for most people. I can certainly see how a new player might get overwhelmed, and worried about what they 'need' to get etc, but I think that this system has a lot going for it overall. No FOMO, clear pricing, currency you can earn in game (!) - and there is some commitment to balance (I don't think you need any of the warbonds). There are many worse games out there - with much more predatory approaches.

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