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71 Open 17 Closed
71 Open 17 Closed
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Issues list

Docker support?
#105 opened Dec 6, 2024 by hukai916
1
A bug in Count function
#104 opened Oct 8, 2024 by panktigosar
ATACseq
#103 opened Aug 26, 2024 by ealemon
1
bioconductor-deseq2 1.16.1 but there are no viable options
#102 opened Aug 17, 2024 by sahuno
2
Sorting mistake?
#101 opened Jun 23, 2024 by messagian
Expectation Maximization on TE counting
#100 opened May 17, 2024 by AresRASP
Using SQuIRE with non-model organism
#99 opened Feb 23, 2024 by mdondrup
1
Unable to Install SQuIRE
#98 opened Nov 2, 2023 by frentzeperis
5
Antisense transcription quantification
#97 opened Oct 2, 2023 by ngualand
support Nanopore direct RNA sequencing data ?
#96 opened Sep 28, 2023 by baishengjun
FPKM counts are more than Tot_counts in Squire Count output.
#95 opened Sep 21, 2023 by Surar
T2T Reference Genome
#94 opened Sep 6, 2023 by JaviKizami
1
Call Output
#93 opened Jul 14, 2023 by nkurtys
Count does not consider strangeness
#92 opened Jun 30, 2023 by fgualdr
1
squire requires two conflicting python versions?
#91 opened Jun 15, 2023 by saralinker
1
I can´t to install SQuiRE in conda
#90 opened Jun 7, 2023 by ivfengel
2
Error with squire Call
#89 opened Apr 21, 2023 by CWYuan08
issue with squire count:local variable 'prev_TE_ID' referenced before assignment
#88 opened Feb 17, 2023 by lumosbree
Unable to install squire, package dependency issue
#87 opened Jan 26, 2023 by tejas-j
3
Error while running call
#86 opened Dec 14, 2022 by jayramr
2
Generation of final BAM with re-distribute reads according to EM
#85 opened Nov 13, 2022 by fgualdr
Normalization
#84 opened Nov 3, 2022 by helenhuangmath
1
Description of the count step output missing
#83 opened Oct 27, 2022 by fgualdr
1
count function start from external BAM file
#81 opened Oct 24, 2022 by jamesc99
1
the meaning of clean outputs and how to make a custom bed file
#80 opened Aug 21, 2022 by ZunpengLiu
ProTip! What’s not been updated in a month: updated:<2025-02-11.