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0
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1
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30
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1
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Select a reference genome
bowtie alignment rna-seq written 3 days ago by cucucucoco • 0 • updated 2 days ago by Jennifer Hillman Jackson ♦ 22k
4
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1
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56
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1
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How can I improve my mapping alignment rate with MiSeq 2x300 bp paired-end reads?
alignment rna-seq written 4 days ago by collinmlanger • 20 • updated 2 days ago by Guy Reeves • 1.0k
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2
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49
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2
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Mismatch penalty in BWA
mapping alignment bwa written 17 days ago by Juan Ledesma • 0
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2
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63
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2
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How can I group files by barcode?
alignment written 21 days ago by jixueli • 10
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1
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75
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1
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galGal5 reference genome and indexes
indexes genome alignment assembly written 22 days ago by caroline.brossas • 0 • updated 22 days ago by Jennifer Hillman Jackson ♦ 22k
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1
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115
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1
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I want to know how data is normalized between control group and test group in differential rna seq analysis. Can somebody please explain or suggest some references
planet all alignment forum rna-seq written 5 weeks ago by rahulraghavantv • 0 • updated 22 days ago by Jennifer Hillman Jackson ♦ 22k
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1
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61
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1
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How to extract SNPs from galaxy workflow
samtools galaxy snp alignment written 5 weeks ago by sureshbabu.angara • 0 • updated 23 days ago by Jennifer Hillman Jackson ♦ 22k
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2
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51
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2
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how to relate BWA input parameters to get minimum coverage and identity
alignment written 4 weeks ago by gm • 0
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2
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59
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Bowtie with -a --best --strata does not seem to limit alignments to the best strata
bam galaxy bowtie alignment rna-seq written 4 weeks ago by hosheaa • 20
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0
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44
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not able to use cufflinks output from galaxy in cummeRbund
cufflinks galaxy alignment forum rna-seq written 5 weeks ago by rahulraghavantv • 0
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2
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91
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2
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MNase ChIP-seq paired-end data analysis ?
chip-seq samtools galaxy bowtie alignment written 6 weeks ago by ghahhari.nm • 0
0
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1
answer
83
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1
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Issue with stitch MAF block tool in galaxy
galaxy alignment written 6 weeks ago by kkarri • 0 • updated 6 weeks ago by Jennifer Hillman Jackson ♦ 22k
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1
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78
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1
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FeatureCount output does not match view in IGV browser
galaxy alignment rna-seq written 8 weeks ago by hosheaa • 20 • updated 6 weeks ago by Jennifer Hillman Jackson ♦ 22k
0
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1
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46
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1
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Error with BWA in local Galaxy
galaxy alignment written 6 weeks ago by yesabelst • 0 • updated 6 weeks ago by Jennifer Hillman Jackson ♦ 22k
2
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1
answer
87
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1
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Poor overall alignment rates
galaxy alignment rna-seq written 8 weeks ago by egonz340 • 10 • updated 8 weeks ago by Jennifer Hillman Jackson ♦ 22k
4
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4
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154
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4
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>90% aligned concordantly 0 times ChIP-seq Bowtie2
chip-seq bowtie alignment written 10 weeks ago by Gema Sanz Santos • 110
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2
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120
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2
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genome mappability and peak calling
chip-seq alignment written 11 weeks ago by Crevi • 0
1
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1
answer
79
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1
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Bowtie2 not running
alignment written 11 weeks ago by ndamas • 20 • updated 11 weeks ago by Jennifer Hillman Jackson ♦ 22k
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1
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120
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1
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Newbie wanting to align Ion Torrent PGM data to mitochondrial DNA template
alignment written 3 months ago by mpugh • 0 • updated 3 months ago by Jennifer Hillman Jackson ♦ 22k
1
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3
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213
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3
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RNA STAR Gapped-read mapper for RNA-seq data
rnastar rnaseq alignment memory-failure written 3 months ago by negin_valizadegan • 0
1
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1
answer
190
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1
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RNA STAR FATAL PARAMETER ERROR: limitGenomeGenerateRAM=31000000000is too small for your genome
alignment rna-seq written 3 months ago by Kaylinnette.Pinet • 0 • updated 3 months ago by Jennifer Hillman Jackson ♦ 22k
2
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2
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162
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2
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Paired End FASTQ files
chip-seq galaxy alignment written 3 months ago by Mahesh.Hegde • 0 • updated 3 months ago by Jennifer Hillman Jackson ♦ 22k
1
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1
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170
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1
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Intersect the intervals of two datasets (Galaxy Version 1.0.0)
chip-seq alignment written 3 months ago by mdp07vm • 20 • updated 3 months ago by Jennifer Hillman Jackson ♦ 22k
3
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1
answer
99
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1
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HELP! My HT seq table counts are in zero
htseq rna-seq alignment genome-mismatch written 3 months ago by j.gonzalez10 • 0 • updated 3 months ago by Jennifer Hillman Jackson ♦ 22k
0
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1
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102
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1
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genome of interest is not listed
alignment rna-seq written 4 months ago by jiezhou68 • 0 • updated 4 months ago by Jennifer Hillman Jackson ♦ 22k
0
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2
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103
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2
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TOPHAT align half of the reads
alignment tophat rna-seq written 4 months ago by vit.filippo • 0
0
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1
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119
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1
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Getting an error when trying to align sequence data with bowtie2
chip-seq galaxy alignment written 4 months ago by mohammedtleis • 0 • updated 4 months ago by Jennifer Hillman Jackson ♦ 22k
2
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1
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127
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1
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TopHat Error stating that (installed) Bowtie2 is not installed
rna-seq galaxy bowtie software error alignment written 4 months ago by mohammedtleis • 0
2
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1
answer
116
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1
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How to align 500 fastq unpaired files to an uploaded reference and put every single result to a new folder?
alignment mapping batch fastq written 4 months ago by msprindzhuk • 40 • updated 4 months ago by Guy Reeves • 1.0k
1
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1
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133
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1
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Aligning more than 2 sequences
variant analysis alignment ngs written 5 months ago by ppurkayastha2010 • 10 • updated 5 months ago by Jennifer Hillman Jackson ♦ 22k
0
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1
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212
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1
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remove in mapping results the reads that aligned > 1 times
galaxy bowtie alignment written 5 months ago by cpozacarrion • 0 • updated 5 months ago by Devon Ryan • 1.6k
2
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2
answers
223
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2
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rna seq read cleaning
alignment rna-seq written 5 months ago by rahul.sg98 • 0 • updated 5 months ago by luca.marisaldi • 30
0
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1
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142
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1
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Problems to mapping in Bowtie 2 ??
galaxy snp alignment written 5 months ago by cpozacarrion • 0 • updated 5 months ago by Jennifer Hillman Jackson ♦ 22k
5
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1
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202
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5 follow
1
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Batch workflow with two different inputs each time?
batch galaxy alignment workflow multiple inputs written 5 months ago by david.roquis • 10 • updated 5 months ago by jmchilton ♦ 1000
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2
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188
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2
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Reference genome can it be partial?
rna-seq alignment tophat assembly written 6 months ago by RACHAMPION • 10 • updated 6 months ago by shengweima • 0
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