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RNAseq analysis of organism not included in BSgenome using QuasR
QuasR
3 months ago anuranjansrathore • 0 • updated 3 months ago Michael Stadler • 340
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1
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74
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using qCount from the QuasR package
qCount QuasR NA
5 months ago jabbar_campbell • 0 • updated 5 months ago Michael Stadler • 340
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3
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122
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QuasR::qAlign: how to specify maximum allowed number of mismatches and output all alignments
QuasR
13 months ago Julie Zhu ♦ 4.2k • updated 13 months ago Michael Stadler • 340
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4
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254
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qQCReport Missing Plots Described in Documentation
QuasR
22 months ago Dario Strbenac ♦ 1.5k • updated 22 months ago Hotz, Hans-Rudolf • 400
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2
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390
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Error in checkForRemoteErrors(val) : QuasR: can't pass alignment parameters
quasR quasr error alignmentparameters quasr
2.2 years ago Amer Ghalawinji • 0
1
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1
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380
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QuasR error message
QuasR RNA_Seq
3.1 years ago ta_awwad • 10 • updated 3.1 years ago Hotz, Hans-Rudolf • 400
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1
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375
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qCount with a GRangesList is very slow
QuasR qCount GRangesList
3.5 years ago vakul.mohanty • 10
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402
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can not depends QuasR in another package
QuasR
3.6 years ago zwfanwz678 • 0
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0
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704
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QuasR - preprocessReads fails with a SRFilterResult error
quasr quasr error
3.9 years ago jlncrnt • 10
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442
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RNA Seq // QuasR : Error while extracting unmapped reads
quasr quasr error paired-end reads rnaseq
4.0 years ago guillaume.dachy • 0
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464
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Error in qAlign, QuasR, in paired-end RNA Seq
quasr paired-end reads rnaseq
4.0 years ago guillaume.dachy • 0
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0
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433
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Error preprocessReads : Error in writeFastq
quasr rnaseq paired-end reads
4.1 years ago guillaume.dachy • 0
1
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6
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664
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Multithreading problems with qalign
quasr parallel
4.1 years ago kirt.onthank • 0 • updated 4.1 years ago Hotz, Hans-Rudolf • 400
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2
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624
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Fusion gene mutation detection
bioconductor quasr
4.5 years ago maedakus • 10
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1
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ERROR: lazy loading failed for package 'QuasR'
QuasR
4.8 years ago Hackerzone85 • 0 • updated 4.8 years ago Martin Morgan 25k
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4
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773
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Splicemap (in QuasR) failed while aligning 25mers
QuasR rnaseq alignment splicemap bowtie2
4.9 years ago • updated 4.8 years ago Gabriella • 0
0
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1
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664
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error when genomeFile too big when running Quasr on >3 clusters
quasr parallel cluster
5.0 years ago rna seq • 90
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9
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976
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problem using >3 clusters with Quasr
quasr parallel
5.0 years ago rna seq • 90 • updated 5.0 years ago Martin Morgan 25k
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3
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682
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RNAseq_alignment_SpliceMap processing time_QuasR
SpliceMap QuasR RNAseq Alignment
5.0 years ago tarek.mohamed • 10 • updated 5.0 years ago Hotz, Hans-Rudolf • 400
2
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4
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794
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Bowtie % mapped reads for DGE
Bowtie quasr rnaseq
5.0 years ago tarek.mohamed • 10 • updated 5.0 years ago Dario Strbenac ♦ 1.5k
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1
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653
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QuasR: spliced and unspliced alignment
quasr alignment
5.0 years ago nadia_boufaied • 0 • updated 5.0 years ago Hotz, Hans-Rudolf • 400
0
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1
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699
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Postdoctoral research fellow
QuasR
5.0 years ago tarek.mohamed • 10 • updated 5.0 years ago Hotz, Hans-Rudolf • 400
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2
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695
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QuasR alignment interruption
quasr
5.1 years ago nadia_boufaied • 0 • updated 5.1 years ago Hotz, Hans-Rudolf • 400
0
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5
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882
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SpliceMap in QuasR package failing when sorting 25mer-alignments
rnaseq quasr alignment
5.1 years ago nadia_boufaied • 0 • updated 5.1 years ago Hotz, Hans-Rudolf • 400
2
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5
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1.2k
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QuasR: Loading BAM files as start point
quasr
5.4 years ago rahel14350 • 10 • updated 5.4 years ago Michael Stadler • 340
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6
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1.8k
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RNA-seq analysis with R/BioC: alignment and read counts
drosophila melanogaster quasR genomicfeatures genomicranges alignment
5.5 years ago Fiona • 70 • updated 5.5 years ago Hervé Pagès 14k
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2
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948
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quasR - how are exon identifiers for exon counts determined
rnaseq exon quasr
6.1 years ago sven.schuierer • 0 • updated 6.1 years ago Steve Lianoglou 13k
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1
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602
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QuasR - importing alignment files from other aligners
quasr
6.2 years ago sven.schuierer • 0 • updated 6.2 years ago Hotz, Hans-Rudolf • 400
0
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1
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592
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Memory error building index
QuasR
6.3 years ago hmabril • 0 • updated 6.3 years ago Martin Morgan 25k
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2.2k
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'CreateProcess' failed to run error with Rbowtie
software error quasr rbowtie
6.3 years ago annabel.ferguson • 0
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2
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934
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QuasR question
QuasR
6.4 years ago Michael Stadler • 340 • updated 6.4 years ago Daniel Soronellas • 10
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671
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QuasR for miRNA
miRNA QuasR miRNA QuasR
6.7 years ago Michael Stadler • 340
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7
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1.1k
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QuasR: problem accessing BSgenome.Rnorvegicus.UCSC.rn5
Alignment Rattus norvegicus BSgenome BSgenome QuasR Alignment Rattus norvegicus BSgenome
6.9 years ago Guido Hooiveld ♦ 2.8k • updated 6.9 years ago Hervé Pagès 14k
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3
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946
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Summarization by gene or exon or transcript
QuasR QuasR
7.2 years ago Michael Stadler • 340
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0
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1.1k
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Create a sample file /tab delimited file in QuasR
BSgenome convert BSgenome genomes QuasR BSgenome convert BSgenome genomes QuasR
7.2 years ago Michael Stadler • 340
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0
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875
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Create a sample file /tab delimited file in QuasR
BSgenome convert BSgenome QuasR BSgenome convert BSgenome QuasR
7.2 years ago Guest User ♦ 12k
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7
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1.5k
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QuasR on Linux Cluster
BSgenome BSgenome QuasR BSgenome BSgenome QuasR
7.3 years ago Ugo Borello • 340 • updated 7.2 years ago Michael Stadler • 340
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8
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1.7k
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QuasR: how to use an indexed reference genome?
BSgenome BSgenome genomes QuasR BSgenome BSgenome genomes QuasR
7.7 years ago Paul Shannon • 750 • updated 7.7 years ago Michael Stadler • 340
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2
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836
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QuasR special case alignment
Alignment genomes QuasR Alignment genomes QuasR
7.7 years ago Michael Stadler • 340 • updated 7.7 years ago Ugo Borello • 340
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2
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639
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QuasR special case alignment
Alignment QuasR Alignment QuasR
7.7 years ago Ugo Borello • 340 • updated 7.7 years ago Michael Stadler • 340
1
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1
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1.3k
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multiple threads on QuasR
Alignment GLAD QuasR Alignment GLAD QuasR
7.8 years ago • updated 7.7 years ago Michael Stadler • 340
41 results • Page 1 of 1
Recent ...
Replies
Comment: How to use EnrichGo of Cluster Profiler by Lluís Revilla Sancho • 610
Could you share what is the output of `head(gene)`?
Comment: DESeq2 Error: ncol(countData) == nrow(colData) is not TRUE by Pedram • 0
Hello Michael I could not make the same matrix although I did what you said
Comment: Replace a specific nucleotide sequence, at a specific position, with another in by Konstantinos Yeles • 40
Hello @Benjamin-24571 for your example, I can suggest you this code: Read <- c("1","2","3","4") Sequences <- c("ACACCCACG", "AA…
Comment: CHIP Seq Analysis by DiffBind Package by shrinka.genetics • 0
Hello Thanks for your reply. I changed my file format and now it ran. It gave one plot also. All file s are in same directory. No…
Answer: Installing Bioconductor packages in Docker by Konstantinos Yeles • 40
Hello, @adklts-21974 My way to do the installation of packages in a docker is like this: FROM bioconductor/bioconductor_docker…
Votes
A: Interpreting the results from lfcShrink() with apeglm in DESeq2
A: single-cells RNA-seq analysis by MAST with unbalanced group size
single-cells RNA-seq analysis by MAST with unbalanced group size
A: single-cells RNA-seq analysis by MAST with unbalanced group size
A: DESeq2 1.20.0 lfcshrink function
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