Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / calico/solo issues and pull requests

#89 - Update packages

Pull Request - State: closed - Opened by davek44 about 2 months ago

#87 - Relax dependencies

Pull Request - State: closed - Opened by JoshLoecker 7 months ago

#86 - Dependencies are too strict

Issue - State: closed - Opened by JoshLoecker 7 months ago - 1 comment

#85 - Bump tqdm from 4.66.2 to 4.66.3

Pull Request - State: open - Opened by dependabot[bot] 10 months ago
Labels: dependencies

#84 - addressed conda lightning conflict

Pull Request - State: closed - Opened by anyakors 11 months ago

#83 - Dependency conflict: lightning 2.1.4 and scvi-tools 1.1.2

Issue - State: closed - Opened by jpintar 11 months ago - 1 comment

#82 - set up consistent python3.12 env

Pull Request - State: closed - Opened by anyakors 12 months ago - 2 comments

#80 - hashsolo requires dense array

Issue - State: open - Opened by zktuong about 1 year ago

#79 - Issues with hashsolo

Issue - State: closed - Opened by st4302 almost 2 years ago

#78 - Error using h5ad file

Issue - State: closed - Opened by jddavies95 about 2 years ago - 2 comments

#77 - Hashsolo failing when only two HTOs are present?

Issue - State: closed - Opened by apredeus over 2 years ago - 5 comments

#76 - Solo in line?

Issue - State: closed - Opened by cnk113 over 2 years ago - 3 comments

#75 - Problem with solo - PyTorch Lightning

Issue - State: closed - Opened by mari-ga over 2 years ago - 4 comments

#74 - Problem with hashsolo

Issue - State: open - Opened by Kani0n over 2 years ago - 10 comments

#73 - Newbie questions: warning message, model parameters, and outputs

Issue - State: closed - Opened by lauren-fish almost 3 years ago - 5 comments

#72 - Add learning-rate parameter

Pull Request - State: closed - Opened by Elhl93 almost 3 years ago - 3 comments

#71 - Solo encountering Nan values with 10x data

Issue - State: closed - Opened by symbiologist almost 3 years ago - 7 comments

#70 - Allow specification of validation loss check interval

Pull Request - State: closed - Opened by georgiaschmitt over 3 years ago - 1 comment

#69 - python 3.6 incompatibility

Issue - State: closed - Opened by drneavin over 3 years ago - 5 comments

#67 - Solo on 10x genomics scRNA data

Issue - State: closed - Opened by rpauly over 3 years ago - 3 comments

#66 - Error on new solo version

Issue - State: closed - Opened by cnk113 over 3 years ago - 8 comments

#65 - Finding solo installed version

Issue - State: closed - Opened by mmfalco over 3 years ago - 2 comments

#64 - Running error: "Resource temporarily unavailable"

Issue - State: closed - Opened by mmfalco over 3 years ago - 2 comments

#63 - h5ad for HashSolo & solo .pdf plots output

Issue - State: closed - Opened by DanSchnell almost 4 years ago - 2 comments

#62 - Difference between is_doublet and preds

Issue - State: closed - Opened by ymahmoud almost 4 years ago - 2 comments

#61 - To scvi tools

Pull Request - State: closed - Opened by njbernstein almost 4 years ago - 9 comments

#60 - moving to scvi-tools

Issue - State: closed - Opened by njbernstein almost 4 years ago

#59 - 2c.h5ad doesn't contain gene names

Issue - State: closed - Opened by brianpenghe about 4 years ago - 1 comment

#58 - Performance testing

Pull Request - State: closed - Opened by njbernstein about 4 years ago - 1 comment

#57 - Performance testing

Pull Request - State: closed - Opened by njbernstein about 4 years ago - 1 comment

#56 - Problem with loom file

Issue - State: closed - Opened by marzamKI about 4 years ago - 11 comments

#55 - reproducible_seed

Pull Request - State: closed - Opened by njbernstein about 4 years ago

#54 - Limited reproducibility

Pull Request - State: closed - Opened by njbernstein about 4 years ago - 2 comments

#53 - Running solo on a sample as a batch job

Issue - State: closed - Opened by drlaurenwasson about 4 years ago - 4 comments

#52 - limited reproducibility

Issue - State: closed - Opened by grst about 4 years ago - 4 comments

#51 - Dataset10x Failing to Load

Issue - State: closed - Opened by drneavin over 4 years ago - 3 comments

#50 - scvi is deprecated

Issue - State: closed - Opened by adamgayoso over 4 years ago - 8 comments

#48 - ValueError: The parameter mu has invalid values

Issue - State: closed - Opened by drneavin over 4 years ago - 13 comments

#47 - Text file output

Pull Request - State: closed - Opened by njbernstein over 4 years ago

#46 - Can not read from remote repository

Issue - State: closed - Opened by thugib over 4 years ago - 3 comments

#45 - Output Recommendation

Issue - State: closed - Opened by drneavin over 4 years ago - 4 comments

#44 - Preprocessing Error - IndexError: tuple index out of range

Issue - State: closed - Opened by JonasMir over 4 years ago - 6 comments

#43 - scipy error

Issue - State: closed - Opened by dylanmr over 4 years ago - 2 comments

#42 - MemoryError

Issue - State: closed - Opened by reykajayasinghe over 4 years ago - 2 comments

#41 - Create notebook showing how to use and the benefits of Solo

Issue - State: open - Opened by njbernstein over 4 years ago - 1 comment

#40 - h5ad dataset

Issue - State: closed - Opened by xinyiwangjuno over 4 years ago - 1 comment

#39 - Any pre-trained model

Issue - State: closed - Opened by JuanruMaryGuo over 4 years ago - 3 comments

#38 - 10x to dense

Pull Request - State: closed - Opened by njbernstein over 4 years ago

#37 - add batch_size

Pull Request - State: closed - Opened by davek44 over 4 years ago - 2 comments

#36 - Error during run

Issue - State: closed - Opened by drneavin over 4 years ago - 4 comments

#35 - checking for sparse matrix in hashsolo

Pull Request - State: closed - Opened by njbernstein over 4 years ago

#34 - json variables

Issue - State: closed - Opened by drneavin over 4 years ago - 2 comments

#33 - Error in inline usage

Issue - State: closed - Opened by jenzopr over 4 years ago - 7 comments

#32 - sklearn.metrics error

Issue - State: closed - Opened by guensen0 over 4 years ago - 2 comments

#31 - Add 10x

Pull Request - State: closed - Opened by njbernstein over 4 years ago

#30 - Implement a proper logger

Issue - State: open - Opened by njbernstein over 4 years ago - 1 comment

#29 - Fix requirements

Pull Request - State: closed - Opened by njbernstein over 4 years ago

#28 - Add batching to Solo

Issue - State: open - Opened by njbernstein over 4 years ago - 2 comments

#27 - Add testing for performance

Issue - State: closed - Opened by njbernstein over 4 years ago

#26 - Fix requirements

Issue - State: closed - Opened by njbernstein over 4 years ago

#25 - Have solo consume 10x directory directly

Issue - State: closed - Opened by njbernstein over 4 years ago - 2 comments

#24 - Final before paper

Pull Request - State: closed - Opened by njbernstein almost 5 years ago

#23 - Final before paper

Pull Request - State: closed - Opened by njbernstein almost 5 years ago

#22 - a feedback on compatiblility with scvi_0.6.0

Issue - State: closed - Opened by hy395 almost 5 years ago - 2 comments

#21 - 3K PBMC & AnnData Output

Issue - State: closed - Opened by hisplan about 5 years ago - 4 comments

#20 - Optimal Preprocessing

Issue - State: closed - Opened by michiste about 5 years ago - 2 comments

#19 - Running problem

Issue - State: closed - Opened by xnnba about 5 years ago - 3 comments

#18 - Pypi time

Pull Request - State: closed - Opened by njbernstein about 5 years ago

#17 - Upload on conda/PyPI

Issue - State: closed - Opened by grst about 5 years ago - 3 comments

#16 - ValueError: Length of values does not match length of index

Issue - State: closed - Opened by cartal about 5 years ago - 7 comments

#15 - removed scanpy dependency

Pull Request - State: closed - Opened by njbernstein about 5 years ago

#14 - solo installation issue

Issue - State: closed - Opened by yding9 about 5 years ago - 3 comments

#13 - Add scores and labels directly to `anndata` object

Issue - State: closed - Opened by cartal about 5 years ago - 9 comments

#12 - QUESTION: Running `solo` on multiple batches?

Issue - State: closed - Opened by cartal about 5 years ago - 2 comments

#11 - Bump pillow from 6.0.0 to 6.2.0

Pull Request - State: closed - Opened by dependabot[bot] about 5 years ago - 1 comment
Labels: dependencies

#10 - Fix install for mzhibo

Pull Request - State: closed - Opened by njbernstein about 5 years ago

#9 - installation error

Issue - State: closed - Opened by mzhibo about 5 years ago - 5 comments

#8 - fixing tests

Pull Request - State: closed - Opened by njbernstein over 5 years ago

#7 - jacobs amoolyas and eddies comments addressed

Pull Request - State: closed - Opened by njbernstein over 5 years ago

#6 - Solo and demultiplexing code review

Pull Request - State: closed - Opened by njbernstein over 5 years ago - 2 comments

#5 - Demultiplex

Pull Request - State: closed - Opened by njbernstein over 5 years ago

#4 - Demultiplex

Pull Request - State: closed - Opened by njbernstein over 5 years ago

#3 - Demultiplex

Pull Request - State: closed - Opened by njbernstein over 5 years ago - 2 comments

#2 - Randomize doublet depth size scaling factors

Pull Request - State: closed - Opened by jacobkimmel over 5 years ago

#1 - Known doublet

Pull Request - State: closed - Opened by njbernstein over 5 years ago - 2 comments