Ecosyste.ms: Issues
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GitHub / AlexandrovLab/SigProfilerExtractor issues and pull requests
#249 - Should the copy number segments be filtered before COPY NUMBER MATRIX GENERATION?
Issue -
State: closed - Opened by YingYa 29 days ago
- 1 comment
#248 - user defined H_initials and W_initials
Issue -
State: closed - Opened by MariaCartolano about 2 months ago
- 2 comments
#247 - Decomposing De Novo Signatures
Issue -
State: closed - Opened by ywhnet 2 months ago
- 2 comments
#246 - Changelog
Issue -
State: open - Opened by IanVermes 2 months ago
- 1 comment
#245 - U65
Pull Request -
State: closed - Opened by mdbarnesUCSD 2 months ago
#244 - CPU usage and GPU usage too little
Issue -
State: closed - Opened by xiaoyaojianghuzai 2 months ago
- 14 comments
#243 - CPU usage and GPU usage too little, and parameters don't take effect
Issue -
State: closed - Opened by xiaoyaojianghuzai 2 months ago
- 1 comment
#242 - index error may be caused by non-standard fields or variant type
Issue -
State: closed - Opened by xiaoyaojianghuzai 3 months ago
- 1 comment
#241 - "Cannot reindex on an axis with duplicate labels"-Error
Issue -
State: closed - Opened by MolPath-Bioinfo 3 months ago
- 1 comment
#240 - AttributeError: 'NoneType' object has no attribute 'keys'
Issue -
State: closed - Opened by jennyp76 3 months ago
- 3 comments
#239 - IndexError occurred when processing directory /app/output: index out of range
Issue -
State: closed - Opened by xiaoyaojianghuzai 3 months ago
- 4 comments
#238 - The difference between SBS96_De-Novo_Solution and COSMIC_SBS96_Decomposed_Solution.
Issue -
State: closed - Opened by shenhaizhongdechanrao 4 months ago
- 3 comments
#237 - sigProfilerExtractor for ID(INDELS)
Issue -
State: closed - Opened by shanimalik86 4 months ago
- 5 comments
#236 - New issue with Indels
Issue -
State: closed - Opened by gafishbein 4 months ago
- 7 comments
#235 - Asking for SBS96 contexts in SigProfilerExtractor but receiving CH1000
Issue -
State: closed - Opened by emilysouthworth 4 months ago
- 1 comment
#235 - Asking for SBS96 contexts in SigProfilerExtractor but receiving CH1000
Issue -
State: closed - Opened by emilysouthworth 4 months ago
- 1 comment
#234 - Denovo Signature and Assigning Signature Matching Error
Issue -
State: closed - Opened by KANGseungseok 5 months ago
- 1 comment
#234 - Denovo Signature and Assigning Signature Matching Error
Issue -
State: closed - Opened by KANGseungseok 5 months ago
- 1 comment
#233 - Singularity container creation
Issue -
State: open - Opened by Katerina10-cloud 5 months ago
- 5 comments
#232 - question about the SigProfilerExtractor
Issue -
State: closed - Opened by nan5895 5 months ago
- 1 comment
#231 - Sample filtering before extraction
Issue -
State: closed - Opened by thisisliuyu 6 months ago
- 1 comment
#230 - ValueError: operands could not be broadcast together with shapes (83,0) (0,0)
Issue -
State: closed - Opened by dineshpeace 7 months ago
- 3 comments
#229 - Issue with install
Issue -
State: closed - Opened by cutleraging 7 months ago
- 2 comments
#228 - Infinite loop
Issue -
State: closed - Opened by SukanyaPanja 7 months ago
- 1 comment
#227 - AttributeError: 'NoneType' object has no attribute 'keys (decomposition.py error)
Issue -
State: closed - Opened by nan5895 7 months ago
- 2 comments
#226 - COSMIC V3.4 Update
Pull Request -
State: closed - Opened by mdbarnesUCSD 8 months ago
#225 - Custom opportunities matrix
Issue -
State: closed - Opened by gevro 8 months ago
- 8 comments
#224 - Minimum number of mutations or genome length.
Issue -
State: closed - Opened by shenhaizhongdechanrao 8 months ago
- 1 comment
#223 - error because of new pandas version
Issue -
State: closed - Opened by sainadfensi 8 months ago
- 1 comment
#222 - Strategies to improve cosine similarity per sample
Issue -
State: closed - Opened by sainadfensi 9 months ago
- 1 comment
#222 - Strategies to improve cosine similarity per sample
Issue -
State: closed - Opened by sainadfensi 9 months ago
- 1 comment
#221 - SBS384 extraction problem
Issue -
State: closed - Opened by frvirard 9 months ago
- 5 comments
#220 - interpretation for SBS 96D
Issue -
State: closed - Opened by sainadfensi 9 months ago
- 5 comments
#219 - Inquiry Regarding sigProfilerExtractor Resource Requirements
Issue -
State: closed - Opened by ShinXeno 9 months ago
- 1 comment
#218 - I4608
Pull Request -
State: closed - Opened by mdbarnesUCSD 10 months ago
#217 - Signature plots not being plotted for 4608 context extractions
Issue -
State: closed - Opened by jnau 10 months ago
#216 - calculate cosine similarity
Issue -
State: closed - Opened by me-nobody 11 months ago
- 1 comment
#215 - Cosine similarity for each COSMIC signature
Issue -
State: closed - Opened by nash5202 11 months ago
- 1 comment
#215 - Cosine similarity for each COSMIC signature
Issue -
State: open - Opened by nash5202 11 months ago
#214 - [Errno 2] No such file or directory
Issue -
State: closed - Opened by KANGseungseok almost 1 year ago
- 3 comments
#214 - [Errno 2] No such file or directory
Issue -
State: closed - Opened by KANGseungseok almost 1 year ago
- 3 comments
#214 - [Errno 2] No such file or directory
Issue -
State: closed - Opened by KANGseungseok almost 1 year ago
- 3 comments
#214 - [Errno 2] No such file or directory
Issue -
State: closed - Opened by KANGseungseok almost 1 year ago
- 3 comments
#213 - install own copy of genome
Issue -
State: closed - Opened by me-nobody about 1 year ago
- 1 comment
#213 - install own copy of genome
Issue -
State: closed - Opened by me-nobody about 1 year ago
- 1 comment
#213 - install own copy of genome
Issue -
State: closed - Opened by me-nobody about 1 year ago
- 1 comment
#213 - install own copy of genome
Issue -
State: closed - Opened by me-nobody about 1 year ago
- 1 comment
#212 - Alexandrov FTP server not responding
Issue -
State: closed - Opened by daanhazelaar about 1 year ago
#212 - Alexandrov FTP server not responding
Issue -
State: closed - Opened by daanhazelaar about 1 year ago
#212 - Alexandrov FTP server not responding
Issue -
State: closed - Opened by daanhazelaar about 1 year ago
#212 - Alexandrov FTP server not responding
Issue -
State: closed - Opened by daanhazelaar about 1 year ago
#211 - UnicodeEncodeError: 'latin-1' codec can't encode characters in position 1-40: ordinal not in range(256)
Issue -
State: closed - Opened by anderdnavarro about 1 year ago
- 5 comments
#211 - UnicodeEncodeError: 'latin-1' codec can't encode characters in position 1-40: ordinal not in range(256)
Issue -
State: closed - Opened by anderdnavarro about 1 year ago
- 5 comments
#211 - UnicodeEncodeError: 'latin-1' codec can't encode characters in position 1-40: ordinal not in range(256)
Issue -
State: closed - Opened by anderdnavarro about 1 year ago
- 5 comments
#211 - UnicodeEncodeError: 'latin-1' codec can't encode characters in position 1-40: ordinal not in range(256)
Issue -
State: closed - Opened by anderdnavarro about 1 year ago
- 5 comments
#210 - number of signatures in solution
Issue -
State: closed - Opened by bakeronit about 1 year ago
- 2 comments
#209 - When running VCFs, ValueError: Error: More than 30% of mutations were skipped.
Issue -
State: closed - Opened by kevlumbus about 1 year ago
- 2 comments
#208 - possible to change minimum signatures?
Issue -
State: closed - Opened by kerstinth about 1 year ago
- 2 comments
#207 - OSError: [Errno 30] Read-only file system
Issue -
State: closed - Opened by maia-munteanu about 1 year ago
- 1 comment
#206 - New Multi-dimensional indexing error
Issue -
State: closed - Opened by kgeyer about 1 year ago
- 2 comments
Labels: enhancement
#205 - ValueError on matrix containing no mutation
Issue -
State: closed - Opened by Izzvoli about 1 year ago
- 1 comment
#204 - Enable redirection of output files
Issue -
State: closed - Opened by RubenRam over 1 year ago
- 1 comment
#203 - GPU-enabled run failed
Issue -
State: closed - Opened by haochenz96 over 1 year ago
- 4 comments
#202 - TypeError in SigProfiler Extractor in concat
Issue -
State: closed - Opened by pushpa-itagi over 1 year ago
- 1 comment
#201 - Plot fix
Pull Request -
State: closed - Opened by mdbarnesUCSD over 1 year ago
#200 - Some errors and question
Issue -
State: closed - Opened by yoonicon over 1 year ago
- 2 comments
#199 - Run SigProfilerExtractor without a reference
Issue -
State: closed - Opened by gamabunta313 over 1 year ago
- 1 comment
#198 - mm39 reference genome?
Issue -
State: closed - Opened by conormcguinness9016 over 1 year ago
- 1 comment
#197 - Bacterial genomes?
Issue -
State: closed - Opened by cyrusmallon over 1 year ago
- 2 comments
#196 - Usage of SigProfilerExtractor with non mutation data
Issue -
State: closed - Opened by andreyurch over 1 year ago
- 1 comment
#195 - Bug in 96 plot tri-nucleotide context naming?
Issue -
State: closed - Opened by jlevatic over 1 year ago
- 1 comment
#194 - FileNotFoundError/ There may be an issue with the formatting of your matrix file
Issue -
State: closed - Opened by nataliagarciamartin over 1 year ago
- 1 comment
#193 - De novo extracted signatures reconstruction seems off
Issue -
State: closed - Opened by skeitaa over 1 year ago
- 2 comments
#192 - CNV test
Pull Request -
State: closed - Opened by mdbarnesUCSD over 1 year ago
#191 - Fixed windows setup so that it installs the correct version of torch every time
Pull Request -
State: open - Opened by nithishbn over 1 year ago
#190 - Upgrade to v1.1.19
Pull Request -
State: closed - Opened by mdbarnesUCSD over 1 year ago
#189 - Traceback
Issue -
State: closed - Opened by ruinw over 1 year ago
- 1 comment
#188 - v1.1.18: ID Decomposition Plot Fix and ID test
Pull Request -
State: closed - Opened by mdbarnesUCSD over 1 year ago
- 1 comment
#187 - FileNotFoundError: [Errno 2] No such file or directory:
Issue -
State: closed - Opened by JLiandbear over 1 year ago
- 1 comment
#186 - Dbs tests
Pull Request -
State: closed - Opened by mdbarnesUCSD over 1 year ago
- 1 comment
#185 - genInstall problem
Issue -
State: closed - Opened by Glies2 over 1 year ago
- 1 comment
#184 - Runtime Error: freeze_support() and dependency issues?
Issue -
State: closed - Opened by roseisgold over 1 year ago
- 2 comments
#183 - FileNotFoundError: SigProfilerAssignment/data/Reference_Signatures/GRCh38/COSMIC_v3.3_ID_GRCh38_exome.txt
Issue -
State: closed - Opened by JLiandbear over 1 year ago
- 2 comments
#182 - Generating plots for COSMIC_v3.3_DBS_GRCh37 now...
Issue -
State: closed - Opened by JLiandbear over 1 year ago
- 1 comment
#181 - error in plotDBS
Issue -
State: closed - Opened by JLiandbear over 1 year ago
- 2 comments
#180 - Question regarding statistical power with small numbers of samples and mutations
Issue -
State: closed - Opened by mattjmeier over 1 year ago
- 2 comments
#179 - docker update
Issue -
State: closed - Opened by snashraf over 1 year ago
- 1 comment
#178 - Development
Pull Request -
State: closed - Opened by mdbarnesUCSD over 1 year ago
#177 - flag make_decomposition_plots not passed on to SPA
Pull Request -
State: closed - Opened by mdbarnesUCSD over 1 year ago
#176 - Error when extracting signatures with SBS96 matrix generated from SigProfilerMatrixGenerator
Issue -
State: closed - Opened by tc86 over 1 year ago
- 5 comments
#175 - Hello,i want to know how can i use the result of SigProfilerMatrixGenerator to start SigProfilerExtractor?
Issue -
State: closed - Opened by ruinw over 1 year ago
- 3 comments
#174 - Tests
Pull Request -
State: closed - Opened by mdbarnesUCSD over 1 year ago
#173 - Crash when trying to create Signature Plot file
Issue -
State: closed - Opened by mattiyeh over 1 year ago
- 2 comments
#172 - remove decomposition plots from SPE
Pull Request -
State: closed - Opened by mdbarnesUCSD over 1 year ago
#171 - Differences in de novo and decomposed solution
Issue -
State: closed - Opened by pushpa-itagi over 1 year ago
- 1 comment
#170 - FileNotFoundError: [Errno 2] No such file or directory: sigProfilerPlotting/templates/DBS78.pkl
Issue -
State: closed - Opened by AldhairMedico over 1 year ago
- 4 comments
#169 - /lib64/libc.so.6: version `GLIBC_2.14' not found
Issue -
State: closed - Opened by JLiandbear over 1 year ago
- 1 comment
#168 - Alter COSMIC version
Issue -
State: closed - Opened by RTCarmo over 1 year ago
- 2 comments
#167 - CNV48 Matrix Input
Issue -
State: closed - Opened by mdbarnesUCSD over 1 year ago
- 1 comment
#166 - Problem with COSMIC Decomposition
Issue -
State: closed - Opened by amootta over 1 year ago
- 3 comments