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FelixKrueger
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TrimGalore
A wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS data
GNU General Public License v3.0
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using --cores
#94
igordot
closed
4 years ago
4
problem running in paired mode persists
#93
adamfreedman
closed
4 years ago
12
size of output files
#92
valentinaOpazo
closed
4 years ago
3
De novo plant genome
#91
hidvegin
closed
4 years ago
6
Add UMI transfer from R2 to readID for IMPLICON
#90
FelixKrueger
closed
4 years ago
1
--three_prime_clip_R1 max=99?
#89
deanpettinga
closed
4 years ago
2
Trim Galore vs Cutadapt Handling of Paired-End Reads
#88
pdellorusso
closed
4 years ago
3
fastqc after trimming
#87
yeroslaviz
closed
4 years ago
1
Using a fasta file with multiple adapter sequences for trimming
#86
tobjores
closed
4 years ago
14
Error related to cutadapt version 2.5
#85
xie186
closed
4 years ago
3
Error during unning trim_galore
#84
krunal2406
closed
4 years ago
2
fix incorrect argument abbreviation
#83
DaGaMs
closed
4 years ago
0
Why the “—paired” process reads in “single-end” mode?
#82
HeXY0515
closed
4 years ago
1
failed per base sequence content & kmer content.
#81
sjfleck
closed
4 years ago
2
v0.6.5 release tar ball contains v 0.6.4 dev
#80
jjv5
closed
4 years ago
1
Steps in Trim galore
#79
Hedi65
closed
4 years ago
4
TrimGalore only detects python 2, but I have python 3
#78
ejwright39
closed
4 years ago
5
more details about -e : Maximum allowed error rate
#77
Shicheng-Guo
closed
4 years ago
9
How to add custom adaptors in Trim Galore?
#76
Shicheng-Guo
closed
4 years ago
2
Paired end trimming WGBS
#75
demis001
closed
4 years ago
13
polyA option
#74
xiaoyunguo
closed
4 years ago
3
Partial matching in adaptor removal (?)
#73
Ni-Ar
closed
4 years ago
3
Allowed values for adapter vs adapter2?
#72
al-dunstan
closed
4 years ago
4
Is bisulfite data after PolyA trimming incompatible with Bismark ?
#71
hd4git
closed
4 years ago
2
clipping before or after adapter trimming
#70
KerstenBreuer
closed
4 years ago
2
Trimmed filename are the same after removing R1&R2
#69
lwx19911226
closed
4 years ago
3
Trim Galore exit signal: '512'
#68
hailee-s
closed
4 years ago
2
Mistake in the explanation of parameter "--basename <PREFERRED_NAME>"
#67
zhxiaokang
closed
4 years ago
1
Inconsistent naming while using --basename
#66
pblumenkamp
closed
4 years ago
3
Error while running Trim_galore
#65
Huang-XN
closed
4 years ago
13
No trimming when no adapter is found
#64
Maarten-vd-Sande
closed
5 years ago
9
Per Base Sequence Content after Adapter Removal
#63
cazzlewazzle89
closed
5 years ago
6
--basename does not work with --output_dir for SE read
#62
pinetree1
closed
5 years ago
2
Question about Illumina adapter removal
#61
HilaryGenetics
closed
5 years ago
4
What do these output files mean?
#60
JavisPeng
closed
5 years ago
8
Non-deterministic output of trim-galore ?
#59
BrunoFant
closed
5 years ago
6
FastQC issues with Java 11
#58
danicic7
closed
5 years ago
4
Trimgalore error
#57
DiegoZavallo
closed
5 years ago
5
Errors with cutadapt command call
#56
Lanilen
closed
5 years ago
5
Using trim_galore without adapters
#55
raivivek
closed
5 years ago
3
Issue with basename
#54
chaochungkuo
closed
5 years ago
4
Path of Python executable via cutadapt
#53
ptrebert
closed
5 years ago
11
Issue in the pipeline with Bismark
#52
chaochungkuo
closed
5 years ago
3
Disabling adapter removal process while running
#51
EgeDede562
closed
5 years ago
1
basename doesn't work
#50
chaochungkuo
closed
5 years ago
3
Using TrimGalore with named pipes as I/O
#49
rob-p
closed
5 years ago
3
cutadapt: error: no such option: -j
#48
krostifangers
closed
5 years ago
18
Python Version Check
#47
fjames003
closed
5 years ago
1
--max_n does not seem to work in RRBS mode
#46
pinetree1
closed
5 years ago
5
Failed to write to file issue - create output folder if it doesn't exist already
#45
itiago
closed
5 years ago
3
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