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andersen-lab
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Freyja
Depth-weighted De-Mixing
BSD 2-Clause "Simplified" License
102
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Low-frequency lineage dropout in plot and dashboard
#152
ktmeaton
closed
1 year ago
3
Wrong classification sublineages?
#151
LauraVP1994
closed
1 year 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
Freyja working methodology
#144
pratibha-kadam
closed
1 year ago
1
update buildLineageMap to fix issues caused by changes to metadata
#143
tkchafin
closed
1 year ago
1
Freyja Plot Error:AttributeError: 'DataFrame' object has no attribute 'append'
#142
pratibha-kadam
closed
1 year ago
1
Summarised lineages not present in Freyja versions 1.4 onwards
#141
Linnet111
closed
1 year ago
9
issue139
#140
dylanpilz
closed
1 year ago
1
freyja plot error
#139
rgn3210
closed
1 year ago
1
Strategy for using 'custom' summarised lineage groups when demixing?
#138
AliceMichie93
closed
1 year ago
4
Unexpected solver error, only when using May 4th 2023 database
#137
algaraber
closed
1 year ago
5
TreeMarkovJumpHistoryAnalyzer, how to use?
#136
abulenciamiguel
closed
1 year ago
1
Issues with deconvoluting XBB sublineages?
#135
jake2298
closed
1 year ago
7
tolerance for non-ASCII characters in variants.tsv
#134
crashfrog
closed
4 months ago
8
Issue with Software Update - Inconsistencies in Results and Request for Reverting to Previous Version
#133
xxqxxq1994
closed
1 year ago
1
Adds custom barcode_build function to CLI
#132
joshuailevy
closed
1 year ago
0
Covariants fixes
#131
dylanpilz
closed
1 year ago
0
updated plot, legends bug
#130
joshuailevy
closed
1 year ago
1
Generating "curated_lineages.json" and "lineages.yml" files for creating barcodes
#129
pgangwar-ucsd
closed
1 year ago
1
Freyja plot not generating proper plots
#128
pratibha-kadam
closed
1 year ago
1
updated covariants options to use relative paths
#127
dylanpilz
closed
1 year ago
0
extract fixes
#126
dylanpilz
closed
1 year ago
0
cvxpy switching solver warning
#125
sgsutcliffe
closed
1 year ago
2
Freyja plot (smoothing)
#124
mikal16
closed
1 year ago
2
Covariants analysis
#123
dylanpilz
closed
1 year ago
0
Error: No such command 'extract'
#122
danstrange
closed
1 year ago
2
freyja plot --config is throwing error
#121
mikal16
closed
1 year ago
1
adds in barcode version checking
#120
joshuailevy
closed
1 year ago
0
KeyError Freyja demix (Lofreq vcf)
#119
LauraVP1994
closed
1 year ago
4
Same results for different samples
#118
mikal16
closed
1 year ago
3
Barcode versioning
#117
hsnguyen
closed
1 year ago
5
Replace `color` flag in the Plot module with the `config` flag
#116
gp201
closed
1 year ago
1
Inconsistance result between different versions.
#115
YuWang07
closed
1 year ago
1
Extract reads with all muts present on the same read
#114
dylanpilz
closed
1 year ago
1
Adds a few modification to Dylan's PR
#113
joshuailevy
closed
1 year ago
0
Read analysis tools
#112
dylanpilz
closed
1 year ago
0
Read analysis tools
#111
dylanpilz
closed
1 year ago
0
Freyja demix ending up in Errors
#110
lifehashopes
closed
1 year ago
3
adjusting github actions, mamba version issue
#109
joshuailevy
closed
1 year ago
1
Freyja boot command error: cvxpy.error.SolverError: Solver 'ECOS' failed.
#108
pratibha-kadam
closed
1 year ago
2
How Freyja determine the lineages
#107
pratibha-kadam
closed
1 year ago
1
Possible Error in BQ.1.1 calls
#106
ParceyM
closed
1 year ago
5
Freyja plot fails when single value in abundances column
#105
susancollins
closed
1 year ago
5
Freyja plot legend is inverted
#104
michellescribner
closed
1 year ago
1
Question - Running Freyja against older samples
#103
gholden3
closed
1 year ago
13
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