linnarsson-lab loompy issues

linnarsson-lab / loompy

Python implementation of the Loom file format - http://loompy.org

BSD 2-Clause "Simplified" License

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issues

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bug in utils.py?

#185 Jintram opened 2 months ago
0
can not add new row attribute

#184 wt12318 opened 3 months ago
0
Release version that doesn’t throw SyntaxWarning

#183 flying-sheep opened 3 months ago
0
loom contains significantly less cells than those in "filtered_feature_bc_matrix"

#182 Lei-Guo opened 5 months ago
0
loom does not appear to be a valid Loom file according to Loom spec version '0.0.0'

#181 bionewplayer opened 8 months ago
1
Loom file doubles in size for normalized Scanpy object vs. raw Scanpy object

#180 twoneu opened 10 months ago
0
[solved] can turn off. where should I put the fastq files?

#179 chen-peng-1874 closed 1 year ago
0
loompy.combine

#178 anafilia opened 1 year ago
0
libc++abi: terminating with uncaught exception of type std::length_error: vector/ using loompy to make loom file from fastq

#177 TM9013 opened 1 year ago
0
Trying to Subset Your Newly Released Datset

#176 zamlerd closed 1 year ago
2
Loompy creating row_attr entries with no value

#175 ivirshup opened 1 year ago
0
The same error exists again #79

#174 FionaMoon opened 1 year ago
0
Question: fast sparse matrix loading

#173 sjfleming opened 1 year ago
0
Got error when running tutorial

#172 FionaMoon closed 1 year ago
4
LoomR and ScopeLoomR can read these two files, but Loompy reports that it cannot read them.

#171 sunjiahe-hub opened 2 years ago
0
ValueError: Required column 'SampleID' or 'Name' not found in sample metadata file

#170 sayaneshome closed 2 years ago
0
h5py 3 requires file mode

#169 rekado opened 2 years ago
0
Missing 'Vega translation ID'

#168 juhjeong opened 2 years ago
2
combine loom issue

#167 yfstkchy opened 2 years ago
0
add_loom function in loompy.py depends on internally deprecated batch_scan_layers

#166 mcarrara-bioinfo opened 2 years ago
0
the mismatch of reutrn type from get_loom_spec_version

#165 ygidtu opened 2 years ago
0
How can I maintain the sample names in `loompy.combine`?

#164 danli349 opened 2 years ago
0
AssertionError: The two arrays are not matching

#163 homomedicus opened 2 years ago
1
Should we pay attention to Warning: no ambient RNA beads were found; maybe sample had too few cells?

#162 denvercal1234GitHub opened 2 years ago
3
Does loompy take into account mitochrondial genes in loom file output?

#161 denvercal1234GitHub opened 2 years ago
0
Fix Code in Shape Mismatch Error Message

#160 jlikhuva closed 2 years ago
0
Metadata.tab file for multiome datasets (snRNA+ATAC-Seq)

#159 alevax opened 2 years ago
1
Saving changes in a loom file

#158 cdiaz45 closed 2 years ago
1
Change cell names in loom file

#157 brianherb closed 2 years ago
2
I meet tbb error today, is there any solution?

#156 HelloWorldLTY opened 2 years ago
0
Saving `IndexError: list index out of range`

#155 abearab opened 3 years ago
3
Error with read_loom

#154 srjacobson opened 3 years ago
0
Building genome index for non-10X platform

#153 andrewjkwok opened 3 years ago
1
Convert older Loom files to newer specification

#152 chenu opened 3 years ago
1
the INF and NaN can not be save by loom format file

#151 honghh2018 opened 3 years ago
1
Error with loompy.combine while concatenating Velocyto output files

#150 shabs24 closed 3 years ago
1
[python 3.8] UnicodeDecodeError: 'ascii' codec can't decode byte 0xce in position 45: ordinal not in range(128)

#149 csgroen opened 3 years ago
5
Error in loading bus records

#148 maddemaddi opened 3 years ago
0
h5py 3.1.0 breaks fancy indexing

#147 camiel-m opened 3 years ago
1
Running Velocyto Command Error

#146 josinejansen opened 3 years ago
1
.create() not recognizing sparse matrices

#145 bschilder opened 3 years ago
5
Indexing too slow

#144 rvinas opened 3 years ago
1
problem with naming of fragments with mouse index build

#143 BenvanderVeer closed 3 years ago
5
Slice / Filter loom file

#142 kleurless closed 3 years ago
1
UnicodeDecodeError when writing fromfq output loom file

#141 marcRDM opened 3 years ago
12
Error decoding run_info.json

#140 MagpiePKU opened 3 years ago
2
Zarr backend support

#139 pjb7687 opened 3 years ago
1
Use comma instead of tab character

#138 gravitogen opened 3 years ago
0
"AttributeError: 'list' object has no attribute 'shape'" in saving loom file using loompy fromfq

#137 Malindrie closed 3 years ago
1
Issue while combining loom files

#136 sidrahmaryam closed 3 years ago
2