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wyang17
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SQuIRE
Software for Quantifying Interspersed Repeat Expression
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Sorting mistake?
#101
messagian
opened
1 month ago
0
Expectation Maximization on TE counting
#100
AresRASP
opened
2 months ago
0
Using SQuIRE with non-model organism
#99
mdondrup
opened
5 months ago
1
Unable to Install SQuIRE
#98
frentzeperis
opened
8 months ago
3
Antisense transcription quantification
#97
ngualand
opened
9 months ago
0
support Nanopore direct RNA sequencing data ?
#96
baishengjun
opened
10 months ago
0
FPKM counts are more than Tot_counts in Squire Count output.
#95
Surar
opened
10 months ago
0
T2T Reference Genome
#94
JaviKizami
opened
10 months ago
1
Call Output
#93
nkurtys
opened
1 year ago
0
Count does not consider strangeness
#92
fgualdr
opened
1 year ago
1
squire requires two conflicting python versions?
#91
saralinker
opened
1 year ago
1
I can´t to install SQuiRE in conda
#90
ivfengel
opened
1 year ago
2
Error with squire Call
#89
CWYuan08
opened
1 year ago
0
issue with squire count:local variable 'prev_TE_ID' referenced before assignment
#88
lumosbree
opened
1 year ago
0
Unable to install squire, package dependency issue
#87
tejas-j
opened
1 year ago
2
Error while running call
#86
jayramr
opened
1 year ago
0
Generation of final BAM with re-distribute reads according to EM
#85
fgualdr
opened
1 year ago
0
Normalization
#84
helenhuangmath
opened
1 year ago
1
Description of the count step output missing
#83
fgualdr
opened
1 year ago
1
Issue installing SQuIRE
#82
diazcastillo
closed
1 year ago
0
count function start from external BAM file
#81
jamesc99
opened
1 year ago
1
the meaning of clean outputs and how to make a custom bed file
#80
ZunpengLiu
opened
1 year ago
0
consensus regions/length issue
#79
jamesc99
closed
1 year ago
0
squire Call error
#78
Surar
closed
2 years ago
3
SQuIRE_gene_TE_counttable - problem
#77
mars188
closed
2 years ago
1
error with " TypeError: sequence item 2: expected string, bool found"
#76
JianGuoZhou3
opened
2 years ago
1
Error in Count for non-UCSC genome
#75
sergiogonmoll
opened
2 years ago
1
Update README to include Bioconda installation
#74
rogadde
closed
2 years ago
0
change call to shell from sh to bash
#73
crankycrank
opened
2 years ago
0
Error with loop_map.sh
#72
GimenaA
opened
2 years ago
3
Sorting Issue With SQuIRE Map
#71
Sesukai
opened
2 years ago
3
Enquiries regarding the cleaned Repeatmasker file
#70
CWYuan08
opened
2 years ago
0
Issue with squire Count: join: multi-character tab ‘-o’
#69
GimenaA
opened
2 years ago
10
Errors occured in SQuIRE Count step
#68
YayanFeng55
opened
2 years ago
2
Can it run as an env module on HPC
#67
MrDotOne
opened
2 years ago
0
explaining TE output
#66
mars188
opened
2 years ago
4
How to run "squire Call"
#65
mars188
closed
2 years ago
1
TE insertions detected in WES
#64
TalRichter
opened
2 years ago
0
Batch Effect Correction in SQuIRE
#63
fernandogs97
opened
2 years ago
1
Not picking fastq files
#62
GiwaAO
opened
2 years ago
3
Error in Call step
#61
AbhijeetRPatil
closed
2 years ago
0
Error while running Call step
#60
AbhijeetRPatil
closed
3 years ago
4
comparison of unstranded vs firstranded data
#59
fernandogs97
opened
3 years ago
0
Problems with call output
#58
fernandogs97
closed
3 years ago
2
Large number of unmapped reads
#57
amwa
opened
3 years ago
1
Running with multiple inputs
#56
amwa
opened
3 years ago
6
issue with running fetch
#55
iichelhadi
opened
3 years ago
4
>80% TEs have expression > 0, is this normal?
#54
TDLewin
opened
3 years ago
4
Non-model species
#53
RRebo
opened
3 years ago
7
An error of running squire
#52
netwchao
closed
3 years ago
0
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