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Hi,
I am using lumpy-express for structural variant calling on populations of few 100 WGR sequenced samples.
This seems to require more than 100GB memory for lumpy. Because of this I can't u…
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1. Change name from inclusion_criteria___1 to the specific inclusion criterion, this will make it easier to interpret what the variable means when it comes to doing data analysis. this obviously i…
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Hi,
We've been using Speedseq for quite some time and a question recently arose as to the meaning of QUAL scores that are a period (.). For example:
```
5 157481885 . C T . PASS SSC=28.913;TYP…
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On deep graphs (2k-fold) I'm seeing gfaffix taking quite a bit of time. It's essentially single threaded, right? Is there a possible way to adapt it to operate in parallel?
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Hi!
FreeBayes reports 4 INFO fields that are used to assess strand and read placement bias.
> ##INFO=
##INFO=
##INFO=
##INFO=
Graphical illustration:
![ngs_biases_short](https://user-im…
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make all
g++ -Wall -O3 -D_FILE_OFFSET_BITS=64 -c split.cpp
cd smithwaterman && make
make[1]: Entering directory `/test/ogap-master/smithwaterman'
make[1]: *** No targets specified and no makefile fou…
nrynn updated
10 years ago
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Could you provide GAF output over the nodes of the graph? Would it be possible to do? I could also submit a patch if you can describe how you'd go about setting this up.
It's defined in the minigra…
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Sometimes you want to generate metrics on the fly. Example use cases:
- You don't want to register metrics before hand since you have a lot of them, instead you'd like a fire-and-forget "create this …
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**Description**
Failed to compile the last version of the accelerate with Nix + GHC 8.10. The compilation fails with segmentation fault:
Compilation log
```
Running phase: setupCompilerEnv…
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In https://github.com/ekg/freebayes/issues/419 @tseemann [asked if vg was ready for bacterial pangenomics](https://github.com/ekg/freebayes/issues/419#issuecomment-377646948). My response better fits …