Ecosyste.ms: Issues
An open API service for providing issue and pull request metadata for open source projects.
GitHub / FelixKrueger/TrimGalore issues and pull requests
#170 - RRBS data trimming-CGA problem
Issue -
State: closed - Opened by MilosCRF about 1 year ago
- 5 comments
#169 - Trim-galore not compatible with latest python inside docker container.
Issue -
State: closed - Opened by jorgeamaya about 1 year ago
- 2 comments
#168 - Trim-galore through Bioconda requires workaround for M1 Macs.
Issue -
State: closed - Opened by trev-f about 1 year ago
- 1 comment
#167 - merge in changes from master
Pull Request -
State: closed - Opened by FelixKrueger over 1 year ago
#166 - Add trimmed sequences to fastq header?
Issue -
State: closed - Opened by js72587 over 1 year ago
- 8 comments
#165 - Is using an automatically recognized 13bp adapter sufficient?
Issue -
State: closed - Opened by user-tq over 1 year ago
- 2 comments
#164 - trimming multiple adapters from both reads
Issue -
State: closed - Opened by mjbug over 1 year ago
- 5 comments
#163 - --paired end specifications
Issue -
State: closed - Opened by mjbug over 1 year ago
- 2 comments
#162 - valX files vs trimmed files? diff output same code?
Issue -
State: open - Opened by desmodus1984 over 1 year ago
- 4 comments
#161 - files corrupted after using clock command
Issue -
State: closed - Opened by AnastasijaVasilevska over 1 year ago
- 3 comments
#160 - trimmed and val
Issue -
State: open - Opened by DWY1a over 1 year ago
- 1 comment
#159 - Question about default quality filtering
Issue -
State: closed - Opened by aepstein96 over 1 year ago
- 1 comment
#158 - UnicodeEncodeError: 'ascii' codec can't encode character '\xb5' in position 2492: ordinal not in range(128)
Issue -
State: closed - Opened by anoopsanal over 1 year ago
- 3 comments
#157 - Trimming .gz files
Issue -
State: closed - Opened by samhimes92 over 1 year ago
- 5 comments
#156 - Fixed essential bug for decompression default path
Pull Request -
State: closed - Opened by FelixKrueger over 1 year ago
#155 - Use of uninitialized value $decompression_path in concatenation (.) or string at /home/sli1/miniconda3/envs/atac3/bin/trim_galore line 2671.
Issue -
State: closed - Opened by shl129 over 1 year ago
- 4 comments
Labels: bug
#154 - Update master
Pull Request -
State: closed - Opened by FelixKrueger over 1 year ago
#153 - update dev
Pull Request -
State: closed - Opened by FelixKrueger over 1 year ago
#152 - declaration for "$maxn_fraction"
Pull Request -
State: closed - Opened by manogenome over 1 year ago
- 2 comments
#151 - get Master up to speed
Pull Request -
State: closed - Opened by FelixKrueger over 1 year ago
#150 - Bringing dev up to current state
Pull Request -
State: closed - Opened by FelixKrueger over 1 year ago
#149 - Optionally use igzip for decompression of gzipped files.
Pull Request -
State: closed - Opened by ghuls over 1 year ago
- 1 comment
#148 - Using TrimGalore for different rounds of adaptor cuttings
Issue -
State: open - Opened by carmencita almost 2 years ago
- 1 comment
#147 - trimgalore and cutadapt in two steps?
Issue -
State: open - Opened by marwa38 almost 2 years ago
- 6 comments
#146 - Can trimgalore be used to clean up mate pair libraries?
Issue -
State: open - Opened by gunjanpandey almost 2 years ago
- 3 comments
#145 - Update Ovation RRBS kit info
Pull Request -
State: closed - Opened by michael-weinstein almost 2 years ago
#144 - Fixes CPU warning bounds
Pull Request -
State: closed - Opened by sclamons almost 2 years ago
#143 - (new) problem with output having reads that don't have a mate in R1 and R2 files.
Issue -
State: open - Opened by bmillerlab almost 2 years ago
- 2 comments
#142 - Can anyone explain Why in default mode -- paired --retain_unpaired only read2 read are retain and not read1
Issue -
State: closed - Opened by veeramv almost 2 years ago
- 5 comments
#141 - cutadapt: error: unrecognized arguments: -f P2_A01_M_0001.fastq Cutadapt terminated with exit signal: '512'.
Issue -
State: closed - Opened by sevmurdock about 2 years ago
- 4 comments
#140 - Segmentation fault when disk space is low
Issue -
State: closed - Opened by pinin4fjords about 2 years ago
- 3 comments
#139 - Run TrimGalore on a FASTA input
Issue -
State: closed - Opened by vkkodali about 2 years ago
- 1 comment
#138 - equivalent of `--discard-untrimmed` parameter in `trim_galore`
Issue -
State: closed - Opened by bounlu about 2 years ago
- 1 comment
#137 - `--max_n` value as a fraction
Issue -
State: closed - Opened by bounlu about 2 years ago
- 4 comments
#136 - After trimming 10 bp at 5', the GC content at 3' changed oddly
Issue -
State: closed - Opened by XiaoTW123 about 2 years ago
- 3 comments
#135 - TrimGalored sequence cannot be mapped with Bowtie2
Issue -
State: closed - Opened by moqri about 2 years ago
- 2 comments
#134 - Changelog doesn't mention 0.6.7
Issue -
State: closed - Opened by HenrikBengtsson over 2 years ago
- 1 comment
#133 - How is an error defined?
Issue -
State: closed - Opened by CharlotteAnne over 2 years ago
- 2 comments
#132 - Adapter trimming in RRBS
Issue -
State: open - Opened by franrodalg over 2 years ago
- 13 comments
#131 - Trim-galore fails at quality check for some samples but not others
Issue -
State: closed - Opened by bonzay36 over 2 years ago
- 3 comments
#130 - adapter+quality trimming followed by hard-trimming
Issue -
State: closed - Opened by pmenzel over 2 years ago
- 5 comments
#129 - No reads end with "A" after trimming
Issue -
State: closed - Opened by hkaspersen over 2 years ago
- 2 comments
#128 - cutadapt: error: unrecognized arguments: -f
Issue -
State: closed - Opened by samsharr over 2 years ago
- 4 comments
#127 - Does TrimGalore handle the Illumina T-overhang
Issue -
State: closed - Opened by pcantalupo over 2 years ago
- 20 comments
#126 - How to properly specify a basename?
Issue -
State: closed - Opened by jolespin almost 3 years ago
- 2 comments
#125 - The --nextseq argument doesn't change the parameters of cutadapt
Issue -
State: closed - Opened by josephhughes almost 3 years ago
- 3 comments
#124 - Cutadapt version error
Issue -
State: closed - Opened by Jacob-Ferrier almost 3 years ago
- 3 comments
#123 - cutadapt cores option docs are misleading
Issue -
State: closed - Opened by keiranmraine about 3 years ago
- 1 comment
#122 - FastQC location as argument to trim_galore
Issue -
State: closed - Opened by niekwit about 3 years ago
- 2 comments
#121 - primerset?
Issue -
State: closed - Opened by marwa38 about 3 years ago
- 2 comments
#120 - Adapter trimming of Illumina DNA PCR-Free prep sequences
Issue -
State: closed - Opened by andrews-matt about 3 years ago
- 3 comments
#119 - Incomplete trimming of Illumina adapters
Issue -
State: closed - Opened by ag1805x about 3 years ago
- 3 comments
#118 - SOLiD sequencing data processing
Issue -
State: closed - Opened by dahun73 about 3 years ago
- 2 comments
#117 - cutadapt: error: [Errno 2] No such file or directory: 'file.fastq\xa0'
Issue -
State: closed - Opened by Hannah1746 over 3 years ago
- 2 comments
#116 - Multicore support not enabled
Issue -
State: closed - Opened by dahun73 over 3 years ago
- 1 comment
#115 - Adapter Content after using TrimGalore
Issue -
State: closed - Opened by nicolasalexandre21 over 3 years ago
- 3 comments
#114 - Update Trim_Galore_User_Guide.md
Pull Request -
State: closed - Opened by eafyounian over 3 years ago
- 1 comment
#113 - The report is ok but fastqc result shows trimming process hasn't been done
Issue -
State: closed - Opened by xjs1996 over 3 years ago
- 4 comments
#112 - FastQC fails after trimming due to "No such file or directory..."
Issue -
State: closed - Opened by kubu4 over 3 years ago
- 2 comments
#111 - Adapter sequence must contain DNA characters only (A,C,T,G or N)!
Issue -
State: closed - Opened by titand98 almost 4 years ago
- 2 comments
#110 - Error - adapter trimming
Issue -
State: closed - Opened by bioramg almost 4 years ago
- 12 comments
#109 - Incompatibility error with latest python 3.9.0
Issue -
State: closed - Opened by janstrauss1 almost 4 years ago
- 2 comments
#108 - TrimGalore removes overrepresented sequences only from R2, R1 untouched.
Issue -
State: closed - Opened by kvn95ss almost 4 years ago
- 3 comments
#107 - Question about auto detected adapter sequnces and trimming only 3' or 5' end
Issue -
State: closed - Opened by dahun73 almost 4 years ago
- 2 comments
#106 - input file
Issue -
State: closed - Opened by YspCoder almost 4 years ago
- 3 comments
#105 - TrimGalore version 0.6.6 thinks Cutadapt version 2.11 is <1.0
Issue -
State: closed - Opened by mariadelmarq almost 4 years ago
- 6 comments
#104 - issue for excessive number of cores
Issue -
State: closed - Opened by dahun73 about 4 years ago
- 3 comments
#103 - Truseq Methyl capture epic library -specific options for trimming
Issue -
State: closed - Opened by freedomq8 about 4 years ago
- 6 comments
#102 - specify output file for pipelines ?
Issue -
State: closed - Opened by colindaven about 4 years ago
- 2 comments
#101 - Multicore support issues
Issue -
State: closed - Opened by dahun73 about 4 years ago
- 3 comments
#100 - How to enter the Adaptor sequence manually?
Issue -
State: closed - Opened by Rui-Jing about 4 years ago
- 1 comment
#99 - python 3.8 incompatibility on Conda?
Issue -
State: closed - Opened by Blosberg about 4 years ago
- 2 comments
#98 - Read length vary for sequence in PE fastq files
Issue -
State: closed - Opened by priyatamapandey about 4 years ago
- 10 comments
#97 - how to set the input files with absolute path
Issue -
State: closed - Opened by WellJoea about 4 years ago
- 5 comments
#96 - Stdout stderr blocking open3
Issue -
State: closed - Opened by aswarren about 4 years ago
- 7 comments
#95 - TrimGalore with 10X data
Issue -
State: closed - Opened by golharam over 4 years ago
- 7 comments
#94 - using --cores
Issue -
State: closed - Opened by igordot over 4 years ago
- 4 comments
#93 - problem running in paired mode persists
Issue -
State: closed - Opened by adamfreedman over 4 years ago
- 9 comments
#92 - size of output files
Issue -
State: closed - Opened by valentinaOpazo over 4 years ago
- 3 comments
#91 - De novo plant genome
Issue -
State: closed - Opened by hidvegin over 4 years ago
- 6 comments
#90 - Add UMI transfer from R2 to readID for IMPLICON
Issue -
State: closed - Opened by FelixKrueger over 4 years ago
- 1 comment
Labels: enhancement
#89 - --three_prime_clip_R1 max=99?
Issue -
State: closed - Opened by deanpettinga over 4 years ago
- 2 comments
#88 - Trim Galore vs Cutadapt Handling of Paired-End Reads
Issue -
State: closed - Opened by pdellorusso over 4 years ago
- 3 comments
#87 - fastqc after trimming
Issue -
State: closed - Opened by yeroslaviz over 4 years ago
- 1 comment
#86 - Using a fasta file with multiple adapter sequences for trimming
Issue -
State: closed - Opened by tobjores over 4 years ago
- 11 comments
#85 - Error related to cutadapt version 2.5
Issue -
State: closed - Opened by xie186 over 4 years ago
- 3 comments
#84 - Error during unning trim_galore
Issue -
State: closed - Opened by krunal2406 over 4 years ago
- 2 comments
#83 - fix incorrect argument abbreviation
Pull Request -
State: closed - Opened by DaGaMs over 4 years ago
#82 - Why the “—paired” process reads in “single-end” mode?
Issue -
State: closed - Opened by HeXY0515 over 4 years ago
- 1 comment
#81 - failed per base sequence content & kmer content.
Issue -
State: closed - Opened by sjfleck over 4 years ago
- 2 comments
#80 - v0.6.5 release tar ball contains v 0.6.4 dev
Issue -
State: closed - Opened by jjv5 over 4 years ago
- 1 comment
#79 - Steps in Trim galore
Issue -
State: closed - Opened by Hedi65 over 4 years ago
- 4 comments
#78 - TrimGalore only detects python 2, but I have python 3
Issue -
State: closed - Opened by ejwright39 over 4 years ago
- 5 comments
#77 - more details about -e : Maximum allowed error rate
Issue -
State: closed - Opened by Shicheng-Guo over 4 years ago
- 9 comments
#76 - How to add custom adaptors in Trim Galore?
Issue -
State: closed - Opened by Shicheng-Guo over 4 years ago
- 2 comments
#75 - Paired end trimming WGBS
Issue -
State: closed - Opened by demis001 over 4 years ago
- 13 comments
#74 - polyA option
Issue -
State: closed - Opened by xiaoyunguo over 4 years ago
- 3 comments
#68 - Trim Galore exit signal: '512'
Issue -
State: closed - Opened by hailee-s almost 5 years ago
- 2 comments
#65 - Error while running Trim_galore
Issue -
State: closed - Opened by Huang-XN about 5 years ago
- 13 comments
#63 - Per Base Sequence Content after Adapter Removal
Issue -
State: closed - Opened by cazzlewazzle89 about 5 years ago
- 6 comments