ktmeaton/ncov-recombinant
Reproducible workflow for SARS-CoV-2 recombinant sequence detection.
PythonMIT
Issues
- 0
Use pango-sequences data as controls
#242 opened by ktmeaton - 0
Make LAPIS query of covSPECTRUM optional
#201 opened by ktmeaton - 0
IndexError: list index out of range
#241 opened by ktmeaton - 0
Investigate use of freyja barcodes
#240 opened by ktmeaton - 0
Nextclade dataset download error
#239 opened by ktmeaton - 0
Make metadata 100% optional.
#236 opened by ktmeaton - 0
Investigate the incorporation of OpenRDP
#235 opened by ktmeaton - 0
Recombinant aliases (EK = XBB.1.5.13)
#237 opened by ktmeaton - 1
proposed1658 | BQ.1.8, XBF(?) or CJ.1(?)
#233 opened by ktmeaton - 0
- 1
Immune Escape Ranking
#227 opened by ktmeaton - 1
XBP | BA.2.75/BQ.1
#211 opened by ktmeaton - 2
VirusSeq Canada
#228 opened by ktmeaton - 2
- 0
- 0
Add citation CFF
#230 opened by ktmeaton - 4
- 1
XBJ | BA.2.3/BA.5.2
#199 opened by ktmeaton - 1
XBH | BA.2.3.17/BA.2.75
#198 opened by ktmeaton - 0
XBG | BA.2.76/BA.5.2
#206 opened by ktmeaton - 0
XBF | BA.5.2.1*,BA.2.75*
#196 opened by ktmeaton - 0
- 3
XBK | BA.5.2/CJ.1
#213 opened by ktmeaton - 0
validate doesn't check status
#225 opened by ktmeaton - 1
UserWarning: Tight layout not applied. The bottom and top margins cannot be made large enough to accommodate all axes decorations.
#224 opened by ktmeaton - 0
CI: setup-miniconda failure
#223 opened by ktmeaton - 0
proposed1576 | BA.5.2/BA.2.75/BA.5.2
#220 opened by ktmeaton - 0
proposed1444 | BA.2.75/BQ.1
#216 opened by ktmeaton - 0
Add GISAID accessKey option for sc2rf
#222 opened by ktmeaton - 0
XBL | BA.2.75/XBB.1
#219 opened by ktmeaton - 0
XBM | BA.2.76/BF.3
#215 opened by ktmeaton - 5
Ratio of parental alleles to intermissions
#195 opened by ktmeaton - 0
XBB.1.5 | BA.2.10/BA.2.75
#217 opened by ktmeaton - 0
- 0
XBN | BA.2.75/XBB.3
#197 opened by ktmeaton - 0
proposed1440 | CJ.1/BA.5.2
#214 opened by ktmeaton - 0
proposed1425 | BA.2.75/BQ.1
#212 opened by ktmeaton - 0
proposed1340 | BN.1.3/XBB.1
#208 opened by ktmeaton - 3
XBB-like ARTIC v4.1 Dropout
#204 opened by ktmeaton - 2
Growth advantage and distribution fitting
#194 opened by ktmeaton - 0
proposed1332
#207 opened by ktmeaton - 0
proposed1305
#203 opened by ktmeaton - 0
- 0
RBD level color palette
#209 opened by ktmeaton - 0
- 0
requests.exceptions.ConnectionError: HTTPSConnectionPool(host='lapis.cov-spectrum.org'): Max retries exceeded with url
#202 opened by ktmeaton - 1
Automatically create lineage report
#200 opened by ktmeaton - 2
False positives caused by sc2rf XAJ mode
#191 opened by ktmeaton - 0
sc2rf mode alternative hypothesis
#192 opened by ktmeaton - 2
Add RBD Level and immune-related stats
#193 opened by ktmeaton