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awohns
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unified_genealogy_paper
A Unified Genealogy of Modern and Ancient Humans
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Generalization of tgp_chr20.trees rule to other chromosomes fails
#40
lukashuebner
opened
1 year ago
0
Use the released stdpopsim
#39
hyanwong
closed
5 months ago
0
Don't imply that Afanasievo needs separate download
#38
hyanwong
opened
1 year ago
0
Change readme to list new working python versions
#37
hyanwong
closed
1 year ago
0
UnboundLocalError: local variable 'report' referenced before assignment
#36
jielab
opened
1 year ago
1
3 start-up questions for "make hgdp_tgp_sgdp_high_cov_ancients_chr20.dated.trees"
#35
jielab
opened
1 year ago
2
error: subprocess-exited-with-error. I just downloaded the latest version of Conda
#34
jielab
opened
1 year ago
4
Re-release an re-dated unified genealogy
#33
hyanwong
opened
1 year ago
0
issue with convert.py
#32
mxyoyeme
opened
1 year ago
2
Bump numpy from 1.20.1 to 1.22.0
#31
dependabot[bot]
opened
2 years ago
0
Cleaning up plotting and simulation code
#30
awohns
closed
3 years ago
0
Update to plot mutation histograms
#29
hyanwong
closed
3 years ago
1
Makefile shouldn't redownload files if they exist
#28
hyanwong
closed
3 years ago
0
add afanasievo data
#27
awohns
closed
3 years ago
0
Truncate ancestors
#26
awohns
closed
3 years ago
0
1000 Genome Tree script not replicable because of msprime.RateMap
#25
xinyli
closed
3 years ago
4
Remove gene conversion
#24
hyanwong
closed
3 years ago
0
Tidy up the data/Makefile
#23
hyanwong
closed
3 years ago
1
Added archaic introgression simulations
#22
awohns
closed
3 years ago
0
Phasing archaics
#21
awohns
closed
3 years ago
0
Load ancient descent details on __init()__
#20
hyanwong
closed
3 years ago
0
Also output SVG file
#19
hyanwong
closed
3 years ago
0
Make self.ts into a method
#18
hyanwong
closed
3 years ago
0
Ideas for viz
#17
hyanwong
opened
3 years ago
0
Comparing the unified TS against an equivalent VCF
#16
hyanwong
opened
3 years ago
0
Mutations figure - WIP
#15
benjeffery
closed
3 years ago
1
Recombination maps
#14
awohns
closed
2 years ago
0
Update TMRCA histogram plotting code
#13
hyanwong
closed
3 years ago
0
Remove link to /home/jk/ in analyze_data.py
#12
hyanwong
closed
1 year ago
1
Add mismatch plots
#11
hyanwong
closed
3 years ago
4
Create a blank Makefile in the data dir
#10
hyanwong
closed
3 years ago
0
Ancient descent and histograms
#9
awohns
closed
3 years ago
2
Re-jig of heatmap
#8
hyanwong
closed
1 year ago
20
Merge Extended Data Figures 3 & 4
#7
hyanwong
closed
1 year ago
1
What mutation rate to use for dating when there are multiple hits
#6
hyanwong
opened
3 years ago
1
See if applying parsimony to the sites changes the percentage of single mut sites
#5
hyanwong
opened
3 years ago
0
Tmrca hist
#4
hyanwong
closed
3 years ago
6
Place contemporary variants into constraints plot
#3
hyanwong
closed
4 years ago
1
List of to-dos
#2
hyanwong
opened
4 years ago
2
Error in msprime Out-of-Africa model
#1
jeromekelleher
closed
2 years ago
0