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fastPHASE -F provided to estimate haplotype frequencies, but no freqs in output

bioinformatics phaseing fastphase genomics written 16 months ago by lakemonster • 10 • updated 13 months ago by tututuz • 0

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Need earlier version of fastPHASE

fastphase written 23 months ago by Gennady Khvorykh • 90 • updated 23 months ago by benjamin.pelissie • 0

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Fastphase cluster determination

cluster genotypes fastphase written 2.9 years ago by dp0b • 40 • updated 23 months ago by Gennady Khvorykh • 90

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Does HaploView perform phasing?

haplotypes haploview phase phasing fastphase written 2.4 years ago by veronicaschroeder78 • 110

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Can Read Back Phased genotypes be used to extend the haplotype blocks with Beagle, Shapeit, FastPhase etc?

shapeit beagle haplotype fastphase readbackphasing written 3.0 years ago by kirannbishwa01 • 1.0k

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Is academic license for fastPHASE disabled?

fastphase written 3.9 years ago by kumar.vinod81 • 280 • updated 3.9 years ago by cpad0112 ♦ 11k

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Error in Installing or running fastPHASE

fastphase haplotype phasing written 4.1 years ago by Mohammad Ghoreishi • 50

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FastPhase:Output file not written in the specified folder

fastphase written 4.3 years ago by kumar.vinod81 • 280 • updated 4.3 years ago by Biostar ♦♦ 20

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fastPHASE output format to PLINK input format

file format plink fastphase written 4.3 years ago by kumar.vinod81 • 280

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how can I make input file for Haploview from Output files of inferred haplotypes by fastPHASE?

haploview phased haplotypes fastphase written 5.1 years ago by mary • 210 • updated 5.0 years ago by Biostar ♦♦ 20

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Recent Replies

C: List of human protein coding genes with given name (known function?) by Adrian Pelin • 2.3k
Makes a lot of sense, thanks. So I just did "`cat Homo_sapiens.GRCh38.95.gtf | grep "gene_biotype...
A: ChIP-seq and histone-seq databases by spinella • 0
Thanks the both of you
C: List of human protein coding genes with given name (known function?) by ATpoint ♦ 21k
The GTF file should typically contain annotation information on the gene type. Select for example...
C: how should be coverage track of technical replicates of alignment visualization by ATpoint ♦ 21k
If you load BAM files they are basically never the same which is normal and expected as read coun...
C: May I use NB.MClust package for RNASeq genes clustering instead of samples clust by J. Smith • 0
I want to use it to cluster RNASeq count data downloaded from TCGA. Genes refers to row names of ...
C: May I use NB.MClust package for RNASeq genes clustering instead of samples clust by ATpoint ♦ 21k
Please explain what kind of data you have. What is `genes`?
C: Continuously add lines to ggplot with for loop by godcent70 • 0
Believe it or not, this is the best answer to solving the looping problem with ggplot. Most of th...
C: Parser for PAF to find structural variants by crimsontabaq • 40
Thanks a lot, great util. But still I was looking for large SV discovery, and what you shared pro...
C: Parser for PAF to find structural variants by WouterDeCoster ♦ 40k
I would suggest taking a look at this approach: https://github.com/lh3/CHM-eval/tree/master/dip-call
C: How to remove some known samples manually after hierarchical clustering observat by Jean-Karim Heriche ♦ 20k
Without details, we can't give specific answers. Removing samples will affect the downstream step...
A: Normalization of allele specific counts in RNA-seq by Ankit • 110
Hi, I came across this tool called ISoLDE (https://www.bioconductor.org/packages/release/bioc/ht...
C: Parser for PAF to find structural variants by crimsontabaq • 40
Good idea, sam is much more used. Can yous suggest a particular way of doing the task with sam? I...

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