dieterich-lab circtools issues

dieterich-lab / circtools

circtools: a modular, python-based framework for circRNA-related tools that unifies several functionalities in a single, command line driven software.

http://circ.tools

GNU General Public License v3.0

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issues

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circtools detect / DCC throw ValueError: could not convert string to float: 'chrM'

#95 gnilihzeux closed 1 month ago
2
circtools install failes with Python 3.10.6

#94 HaraldWilhelmi closed 1 year ago
1
ValueError: numpy.ndarray size changed, may indicate binary incompatibility.

#93 HaraldWilhelmi closed 1 year ago
6
remapping input should be Unmapped.out.mate or mate of PE?

#92 genebial opened 2 years ago
0
Fix and clarification for the R dependencies

#91 HaraldWilhelmi closed 2 years ago
0
Bugfix/docs

#90 HaraldWilhelmi closed 3 years ago
0
Adding empty requirements.readthedocs.txt for RTD build

#89 tjakobi closed 3 years ago
0
Preparations for circtools 1.2

#88 tjakobi closed 3 years ago
0
Sirna

#87 tjakobi closed 4 years ago
1
Enriched exons

#86 tjakobi closed 4 years ago
0
circtools exon should support more species

#85 tjakobi closed 4 years ago
0
linear primers in circtools primex for each circRNA candidate

#84 daaaaande opened 4 years ago
1
primex not intron-aware?

#83 daaaaande closed 1 week ago
3
Python2 and 3 support not feasible on HPC environments

#82 Psy-Fer opened 4 years ago
6
Sirna branch

#81 skambha6 closed 4 years ago
0
Travis build fails due to statsmodels version bump

#80 tjakobi closed 4 years ago
1
Error in dplyr/rlang version using primex module

#79 skambha6 closed 5 years ago
1
circtools installation sets wrong R library folder in .Renviron

#78 tjakobi closed 5 years ago
1
Error installing circtools on Mac OSX due to no wget

#77 skambha6 closed 5 years ago
1
Error using R version 3.6

#76 skambha6 closed 5 years ago
0
Primex crashes when product length > circRNA length

#75 tjakobi closed 5 years ago
0
Do reads need to be aligned with "--outSAMattributes NH HI AS nM NM MD jM jI XS" ?

#74 cmonger closed 5 years ago
1
circtest PDF labels gone

#73 tjakobi closed 5 years ago
0
Enrichment Module Errors

#72 udube closed 5 years ago
9
Primer Design Module Error

#71 udube closed 5 years ago
4
Formatter broken

#70 tjakobi closed 5 years ago
0
Different results for circtest from circtools or from R

#69 idotu opened 5 years ago
2
question on grouping for circtest

#68 idotu closed 4 years ago
1
The exon module only supports human annotations

#67 tjakobi closed 5 years ago
0
Add STAR to required tools

#66 tjakobi closed 5 years ago
0
Fix broken git ssh clone links

#65 tjakobi closed 5 years ago
1
Empty lines in the samplesheet file confuse DCC

#64 tjakobi closed 5 years ago
0
Fix -c option for enrich module

#63 tjakobi closed 5 years ago
0
Provide additional documentation for the enrich module

#62 tjakobi closed 5 years ago
0
Use consistent Python 3 versions in the documentation

#61 tjakobi closed 5 years ago
0
State clearly that FUCHS and DCC require Python 2

#60 tjakobi closed 5 years ago
0
Missing python module in install routine

#59 tjakobi closed 5 years ago
0
Fix broken pysam dependency of HTseq for DCC

#58 tjakobi closed 5 years ago
1
installation error

#57 circR closed 5 years ago
13
Integrating changes for successful macOS installation

#56 tjakobi opened 6 years ago
0
Fresh install fails because of statsmodels

#55 tjakobi closed 6 years ago
2
Primex integration

#54 tjakobi closed 6 years ago
0
Adding --keep-temp parameter to keep temp files (and re-enabling auto…

#53 tjakobi closed 6 years ago
0
Flanking intron integration

#52 tjakobi closed 6 years ago
0
New dictionary layout

#51 tjakobi closed 6 years ago
0
BED track coordinates are incorrect

#50 CDieterich closed 6 years ago
1
rm biomart - add ensembldb

#49 alexey0308 closed 6 years ago
0
Add per exon p-value and log2 fold changes to exon Excel output

#48 tjakobi opened 6 years ago
1
Manual "primer module" missing

#47 giuseppebenvenuto closed 6 years ago
2
Unify all enrichment plotting code in one file

#46 tjakobi closed 6 years ago
0