YangLab CLEAR issues - Githubissues

YangLab / CLEAR

direct comparison of circular and linear RNA expression

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Trouble with using 'circ_quant' function (CLEAR with STAR Alignment)

#23 jennynuyirs opened 5 months ago
0
Problem with pysam: ValueError: fetch called on bamfile without index

#22 BenNiLu opened 8 months ago
1
CLEAR: python2 or python3?

#21 nliorni opened 2 years ago
3
IOError: [Errno 2] No such file or directory: circ/genePred.tmp

#20 lssb opened 2 years ago
3
NO quant or circular output

#19 lbwfff opened 3 years ago
2
TypeError when Running CLEAR: 'NoneType' object is not iterable

#18 JerryZhang-1222 opened 3 years ago
1
ValueError: too many values to unpack

#17 kopardev closed 3 years ago
1
tophat fusion error

#16 sharmi85 opened 3 years ago
2
CodingErrorFound

#15 gudeqing closed 3 years ago
1
single end reads

#14 sharmi85 closed 3 years ago
2
exonFrames field is being added, -genePredExt but no valid frames

#13 sharmi85 opened 3 years ago
6
Feature Request: Calculate FPBlinear for all genes

#12 bounlu closed 3 years ago
1
CLEAR with STAR alignment

#11 bounlu closed 3 years ago
1
Tophat-fusion error

#10 bounlu opened 4 years ago
7
Hisat2 runs extremely slow

#9 bounlu closed 4 years ago
1
FPBcirc vs FPBlinear comparison from different sequencing data

#8 bounlu opened 4 years ago
0
CLEAR availability in anaconda

#7 bounlu opened 4 years ago
0
Tophat2, Bowtie, Samtools compatibility problems

#6 battlerb closed 4 years ago
1
STAR bam files?

#5 zwardnz closed 4 years ago
1
fix bug of relative import (issue #1)

#4 kepbod closed 4 years ago
0
Error in run clear_quant when "start tophat-fusion mapping"

#3 Scathacheng closed 4 years ago
1
Issue when using clear_quant

#2 JunmingH closed 4 years ago
2
Installation issue

#1 jpessin-BU closed 4 years ago
1