open2c cooltools issues

open2c / cooltools

The tools for your .cool's

MIT License

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issues

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IndexError: index 0 is out of bounds for axis 0 with size 0

#542 shRDJr opened 2 weeks ago
0
Error when running cooltools random-sample

#541 GMFranceschini opened 1 month ago
4
Update pool decorator, and multiprocessing

#539 Yaoyx closed 1 month ago
2
Can not install cooltools

#538 xiasijian opened 2 months ago
1
Control/Observed whole genome.

#537 rkash opened 2 months ago
1
Performance of obs/exp pileups is significantly lower than of obs pileups with nproc > 1

#536 dmitrymyl opened 3 months ago
0
Pool decorator doesn't allow 3rd party multiprocessing map functors

#535 dmitrymyl closed 1 month ago
0
make register_cmap backward compatible wrt to argument order

#534 golobor closed 3 months ago
0
an attempt to fix register_cmap import in plotting

#533 golobor closed 3 months ago
3
fix a major bug in cross score

#532 golobor closed 3 months ago
0
reduce the chunksize in rearrange to a more reasonable 2e7

#531 golobor closed 3 months ago
2
how to get expected contact frequency

#530 BenxiaHu closed 1 month ago
1
IndexError: Positional Indexers are Out-of-Bounds in Insulation Calculation

#529 g1g122 closed 3 months ago
3
cooltools.eigs_cis encountered an error

#528 LHXqwq closed 3 months ago
0
mcool format conversion

#527 mdozmorov closed 4 months ago
4
update cooltools in conda

#526 fys666 opened 4 months ago
0
Issue with pileup example

#525 erika-anderson closed 1 month ago
1
Unable to install cooltools

#524 yuri-practice-only closed 1 month ago
2
Possible bug in insulation?

#523 gdolsten closed 5 months ago
3
cooltools insulation IndexError: positional indexers are out-of-bounds

#522 WenjuSun closed 5 months ago
4
Cooltools Dots problem in chicken genome with external mcool file

#521 pollicipes closed 5 months ago
1
`Matplotlib` 3.9 broken dependency

#520 nvaulin closed 3 months ago
3
cooltools virtual4c

#519 BenxiaHu opened 6 months ago
4
cooltools.expected_cis output does not have the 'dist_bp' column

#518 danobaji closed 6 months ago
2
change v0.6.2 to v0.7.0 in changelog as well

#517 Yaoyx closed 7 months ago
0
Support pandas 2

#516 nvictus closed 7 months ago
0
update version and changelog

#515 Yaoyx closed 7 months ago
0
saddle plot

#514 BERICP01 closed 7 months ago
1
Support newer pandas (>2) and python (>3.10) versions

#513 thomas-reimonn closed 7 months ago
0
dist_bp and contact_frequency fields missing from CVD function.

#512 ratheraarif closed 7 months ago
10
Issue with scoring_and_histogramming_step: ValueError: There are la_exp.donut.value in (8192.0, inf], please check the histogram

#511 satvikgunjala closed 1 month ago
4
logo

#510 gfudenberg closed 8 months ago
0
first diagonal NaNs for smoothed expected_cis

#509 gfudenberg opened 8 months ago
0
cooltools.dots runs under different conda environments

#508 Jiangyuan-Liu closed 8 months ago
2
allow alternate reductions for aggregation across diagonals

#507 gfudenberg opened 8 months ago
0
synchronize CLI and API defaults for get_expected_cis smoothing & aggregation

#506 gfudenberg opened 8 months ago
0
migrate log-smoothing to mini-library

#505 gfudenberg opened 8 months ago
2
adaptive coarsegrain returns numpy attribute error

#504 danobaji closed 6 months ago
0
insulation & edge effects: consider masking?

#503 gfudenberg opened 9 months ago
0
snippers: order of "select" and "snip" matters, but should it

#502 sergpolly opened 9 months ago
0
Include smoothed count in cvd table

#501 Yaoyx closed 8 months ago
4
Include smoothed count in cvd table

#500 Yaoyx closed 9 months ago
0
1. use n_elem for calculating count.avg 2. store count.avg.smoothed and count.avg.smoothed.agg in cvd table

#499 Yaoyx closed 9 months ago
0
cooltools.virtual4c does not write valid .bw files

#498 StrohD closed 9 months ago
2
Cross score sandbox fixes

#497 agalitsyna closed 9 months ago
0
fetch genomic feature issue when trying dots & focal enrichment

#495 yingsun-ucsd closed 9 months ago
37
Error Running compute-saddle CLI

#494 GregZs closed 9 months ago
8
Update _numutils.pyx

#493 vishalt12345 opened 10 months ago
2
Refactor snipping

#492 sergpolly closed 10 months ago
0
pileup around centromeres

#491 ratheraarif opened 10 months ago
16