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65 Open 17 Closed
65 Open 17 Closed
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Issues list

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
3
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
1
Error while running call
#86 opened Dec 14, 2022 by jayramr
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
error with " TypeError: sequence item 2: expected string, bool found"
#76 opened May 8, 2022 by JianGuoZhou3
1
Error in Count for non-UCSC genome
#75 opened Apr 17, 2022 by sergiogonmoll
1
Error with loop_map.sh
#72 opened Feb 10, 2022 by GimenaA
3
Sorting Issue With SQuIRE Map
#71 opened Feb 7, 2022 by Sesukai
3
Enquiries regarding the cleaned Repeatmasker file
#70 opened Feb 4, 2022 by CWYuan08
Issue with squire Count: join: multi-character tab ‘-o’
#69 opened Feb 4, 2022 by GimenaA
10
ProTip! no:milestone will show everything without a milestone.