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Can use a directed acyclic graph to keep track of parents, progeny and extract families. Can also use a graph data structure to calculate inbreeding coefficients from pedigrees.
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Hi, Filipe,
I am using ngsF to estimate the inbreeding coefficient for a population of giraffes. I am not sure about the parameter "--freq_fixed". The readMe stated "assume initial MAF as fixed pa…
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add code to check for inbreeding coefficients not available or file empty and for regions or regions file not available or file empty --> then break code and output an error message
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Dear Chen:
Thanks for your wonderful work for polyploid species research. Could you please tell me how change the chromosome ploidy in autopolyploid? The other question is if the population is an …
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Hi Chang,
It seems that PLINK 2.0 depleted the function for checking sex using inbreeding coefficient. Is there any way in PLINK 2.0 to impute sex from the genotypes?
PLINK v2.00a2LM 64-bit Intel (1…
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Hi, I am trying to run prune_graph but I keep getting this error:
```
thread 'main' panicked at src/graph.rs:83:42:
cannot convert weight to float32: ParseFloatError { kind: Invalid }
note: run…
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I followed the [installation instructions](https://github.com/ANGSD-wrapper/angsd-wrapper) and the [tutorial instructions](https://github.com/ANGSD-wrapper/angsd-wrapper/wiki/Tutorial) but am running …
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Hi!
I tried to estimate the inbreeding coefficient for different populations using both ANGSD -doHWE option and ngsF. I use the exact same command to generate the hwe.gz and the glf.gz files (inc…
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**Describe the bug**
Inbreeding gene 99 runs very common in my gene pool as Fluffy 0 passed it down to my best second generation male alicorn, Fluffy 85, who was also quite prolific. Following a purg…
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Hi,
We have dozens of plant HiFi assemblies of inbreeding line, my previous test work on pggb for parameters tuning. I noticed the newest version of cactus including updates of pangenome pipeline.…
baozg updated
2 years ago