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andersen-lab
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Freyja
Depth-weighted De-Mixing
BSD 2-Clause "Simplified" License
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Minimum Depth Question
#194
whottel
closed
5 months ago
3
Custom summarised lineage demix option?
#193
AliceMichie93
closed
5 months ago
2
Adaptive regularization method
#192
joshuailevy
closed
7 months ago
0
187 no group keys passed
#191
dylanpilz
closed
7 months ago
0
RA not summing to 1
#190
djfeistel
closed
7 months ago
5
Manual install
#189
LauraVP1994
closed
6 months ago
1
raise TypeError(f"{cls.__name__}.name must be a hashable type")
#188
bsalehe
closed
5 months ago
1
No group keys passed!
#187
LauraVP1994
closed
7 months ago
6
freyja plot --lineages
#186
mikal16
closed
5 months ago
2
modify convert to handle arbitrarily long chains
#185
joshuailevy
closed
8 months ago
0
Reduce runtime
#184
erinyoung
closed
3 months ago
2
Freyja dash: KeyError and ValueError
#183
bsalehe
closed
8 months ago
2
Fix typo in sorting by frequency
#182
dylanpilz
closed
9 months ago
0
Potential bug in sorting code for covariants function
#181
JHarrisonEcoEvo
closed
9 months ago
1
key error for EG.5.1.8
#180
xsitarcik
closed
8 months ago
8
Pandas update breaks demixing
#179
gabimuir
closed
8 months ago
2
Error running "freyja update"
#178
susancollins
closed
10 months ago
3
Abundance 100%
#177
Linnet111
closed
10 months ago
3
Fix KeyError
#176
dylanpilz
closed
10 months ago
1
how to update freyja from 1.3 to 1.4.5
#175
ybdong919
closed
10 months ago
2
make gisaid tree barcodes default, aa annotations for variants
#174
joshuailevy
closed
10 months ago
0
Get refname from input bam for extract/filter
#173
dylanpilz
closed
10 months ago
0
freyja covariants KeyError
#172
djfeistel
closed
10 months ago
4
lineage Misc?
#171
ybdong919
closed
10 months ago
5
set reference genome and annoation for `freyja extract`
#170
dwinter
closed
10 months ago
1
Adjust data ranges
#169
dylanpilz
closed
11 months ago
0
freyja plot works only when omitting coverage column from aggregated file
#168
carlo-berg
closed
10 months ago
2
depthcutoff Questions
#167
whottel
closed
10 months ago
6
freyja plot doesn't deal with empty pandas df
#166
PlushZ
closed
5 months ago
1
Allow user to pass in lineages.yml
#165
wutron
closed
5 months ago
2
Fix off-by-one error in covariants max_count computation
#164
wutron
closed
11 months ago
1
Plot covariants frequency
#163
dylanpilz
closed
11 months ago
0
Fix KeyError: 'recombinant parents'
#162
dylanpilz
closed
11 months ago
0
Missing "recombinant parents"
#161
wutron
closed
11 months ago
5
Boot0
#160
joshuailevy
closed
11 months ago
1
Compute and write covariant frequencies
#159
wutron
closed
11 months ago
3
Write raw bootstraps
#158
wutron
closed
11 months ago
1
Dash request: minimising legend?
#157
AliceMichie93
closed
5 months ago
2
Plot adjust
#156
joshuailevy
closed
1 year ago
1
small mods to collapse
#155
joshuailevy
closed
1 year ago
0
Identical Abundance Result
#154
whottel
closed
1 year ago
2
Feature request: raw bootstraps
#153
wutron
closed
11 months ago
1
Low-frequency lineage dropout in plot and dashboard
#152
ktmeaton
closed
1 year ago
3
Wrong classification sublineages?
#151
LauraVP1994
closed
10 months ago
17
Plot-covariants-fixes
#150
dylanpilz
closed
1 year ago
0
New release request
#149
PlushZ
closed
1 year ago
2
Freyja plot
#148
mikal16
closed
1 year ago
9
Freyja plot error
#147
adelizamae
closed
1 year ago
1
lineage map fix provided by Tyler
#146
joshuailevy
closed
1 year ago
0
Demix low cov grouping
#145
dylanpilz
closed
1 year ago
1
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