Profile Posts Awards
Show
all questions tools blogs news tutorials forum answers comments
Showing : questions
0
votes
0
replies
481
views
Variant Filtering on very large VCF files
VariantAnnotation VariantFiltering
7 months ago Bogdan ▴ 670
0
votes
0
replies
585
views
conversion a VCF file into a MAF file
VCFArray maftools
9 months ago Bogdan ▴ 670
0
votes
2
replies
1.4k
views
about baseMean in DEseq2
DESeq2
written 2.8 years ago by ▴ 670
0
votes
1
reply
552
views
BioC packages in cancer genomics
genomics cancer
updated 14 months ago by ★ 3.9k • written 14 months ago by ▴ 670
0
votes
1
reply
633
views
GRanges list convert into igraph format
GRanges igraph
updated 15 months ago by ▴ 730 • written 16 months ago by ▴ 670
0
votes
0
replies
458
views
normFactors or calcNormFactors (computing the normalization or scaling factors)
limma edgeR csaw
17 months ago Bogdan ▴ 670
0
votes
0
replies
470
views
RUVg for SNAP-ChIP ?
RUVSeq
17 months ago Bogdan ▴ 670
1
vote
12
replies
2.4k
views
normalization of ChIP-seq data by using the spike-ins or by using total library sizes
DESeq2 edgeR limma
updated 17 months ago by 42k • written 18 months ago by ▴ 670
2
votes
4
replies
1.0k
views
DiffBind and peak counts as input
DESeq2 edgeR DiffBind
updated 17 months ago by ★ 5.2k • written 19 months ago by ▴ 670
1
vote
7
replies
1.0k
views
statistics : edger or DESeq2 to asses the differential binding using the average scores
DESeq2 edgeR
updated 17 months ago by • 0 • written 19 months ago by ▴ 670
3
votes
9
replies
1.6k
views
scDblFinder and xgboost
scDblFinder xgboost
written 2.0 years ago by ▴ 670
0
votes
3
replies
1.3k
views
ShortRead Installation in R 4.2.0 and zlib library
R-4 ShortRead
19 months ago Bogdan ▴ 670
1
vote
1
reply
2.4k
views
installation of BioC packages on Mac M1 Monterrey OS
limma Bioconductor edgeR
19 months ago Bogdan ▴ 670
0
votes
1
reply
1.5k
views
bigwig to counts
DESeq2 edgeR bigwig limma
19 months ago • updated 16 months ago Bogdan ▴ 670
0
votes
2
replies
1.7k
views
converting bedgraph into bigwig
bedgraph wiggleplotr bigwig wig
updated 20 months ago by • 0 • written 21 months ago by ▴ 670
0
votes
6
replies
1.7k
views
performing the differential binding in ChIP-seq
ChIP-seq
updated 13 months ago by • 0 • written 24 months ago by ▴ 670
0
votes
6
replies
1.2k
views
scDblFinder and amulet
scDblFinder
updated 2.0 years ago by • 0 • written 2.0 years ago by ▴ 670
3
votes
5
replies
2.1k
views
reading hdf5 files without hdf5r
hdf5r
updated 2.0 years ago by 16k • written 2.0 years ago by ▴ 670
0
votes
1
reply
528
views
download
BSgenome.Hsapiens.UCSC.hg38 BSgenome.Hsapiens.UCSC.hg38.masked
2.1 years ago Bogdan ▴ 670
0
votes
1
reply
825
views
scATAC-seq median fragments per cell
SnapATAC Signac ArchR scATAC-seq
2.1 years ago Bogdan ▴ 670
1
vote
1
reply
1.2k
views
installing the packages such as BSgenome.Hsapiens.UCSC.hg19
BSgenome.Hsapiens.UCSC.hg19
updated 2.2 years ago by 16k • written 2.2 years ago by ▴ 670
0
votes
1
reply
816
views
peak annotation
ChIPpeakAnno Annotation
updated 2.1 years ago by ▴ 70 • written 2.2 years ago by ▴ 670
1
vote
2
replies
1.4k
views
Gviz and datatracks
Gviz
updated 2.2 years ago by • 0 • written 2.3 years ago by ▴ 670
0
votes
1
reply
758
views
meta-gene profiles
ChIP-seq
updated 2.2 years ago by ▴ 60 • written 2.2 years ago by ▴ 670
0
votes
1
reply
917
views
saving png images and X11
ChipQC
updated 2.2 years ago by ★ 4.1k • written 2.2 years ago by ▴ 670
0
votes
2
replies
918
views
ChIP-seq or CUT&RUN enrichment
ChIPQC ChIPpeakAnno
2.3 years ago Bogdan ▴ 670
0
votes
0
replies
826
views
about monocle3
monocle3
2.5 years ago Bogdan ▴ 670
0
votes
2
replies
1.5k
views
AnnotationDbi
AnnotationDbi
2.6 years ago Bogdan ▴ 670
0
votes
8
replies
2.4k
views
TCL/TK in R
TCL/TK
2.6 years ago Bogdan ▴ 670
0
votes
0
replies
569
views
packages for integrative genomics
genomics integrative GenomicSequence
2.7 years ago Bogdan ▴ 670
1
vote
2
replies
739
views
gene ontologies for a set of genes
gene ontology
2.8 years ago Bogdan ▴ 670
0
votes
6
replies
3.8k
views
extracting the KEGG pathway for a set of genes
Pathways KEGG
2.8 years ago Bogdan ▴ 670
0
votes
3
replies
705
views
identifying trends in RNA-seq data
RNASeq trend
updated 2.8 years ago by ★ 4.1k • written 2.8 years ago by ▴ 670
5
votes
2
replies
16k
views
about MapIds function
mapIds
2.8 years ago Bogdan ▴ 670
0
votes
0
replies
510
views
visualization of circRNA
circRNA circRNAprofiler
2.9 years ago Bogdan ▴ 670
0
votes
0
replies
751
views
display .CT files in a BioC package
RNAinteract rnaseqGene RNASeqRData rnaseqcomp
3.3 years ago Bogdan ▴ 670
6
votes
5
replies
1.6k
views
to extract the mRNA sequences of the canonical RefSeq genes
Biostrings
3.5 years ago Bogdan ▴ 670
0
votes
1
reply
636
views
a BioC/R package that display the genome sequence/ mRNA exons/protein domains
AnnotationHubData
updated 3.5 years ago by ★ 3.9k • written 3.5 years ago by ▴ 670
5
votes
10
replies
1.6k
views
analysis of FACS data using BioC
facs prada flowstats
3.6 years ago Bogdan ▴ 670
0
votes
0
replies
670
views
clustering of scRNAseq gene expression at multiple time points
scRNA-seq time series
3.9 years ago Bogdan ▴ 670
0
votes
3
replies
1.1k
views
extracting the genes associated with a specific pathway
pathway KEGG annotation annotationhub
updated 4.0 years ago by 65k • written 4.0 years ago by ▴ 670
1
vote
1
reply
687
views
a package with randomization/permutation tests for genomic analyses
normalization
4.2 years ago Bogdan ▴ 670
0
votes
0
replies
493
views
permutation and randomization tests
permutation randomization
4.2 years ago Bogdan ▴ 670
3
votes
11
replies
1.8k
views
normalization methods for scRNA-seq and RNA-seq in specific cases of increased global transcription
RNA-seq scRNA-seq
updated 4.3 years ago by ★ 28k • written 4.3 years ago by ▴ 670
0
votes
5
replies
1.6k
views
analysis of multiple time points * 2 replicates of scRNA-seq
scRNAseq
updated 4.3 years ago by ★ 28k • written 4.3 years ago by ▴ 670
4
votes
2
replies
754
views
scRNA-seq analysis : the IDENTITY of the CLUSTERS across MULTIPLE EXPERIMENTS
scRNA-seq
updated 4.4 years ago by ★ 28k • written 4.4 years ago by ▴ 670
0
votes
6
replies
1.8k
views
analysis of multiple batches and multiple treatment conditions in scRNA-seq
limma deseq2 edger scRNAseq combat
updated 4.8 years ago by ▴ 270 • written 4.8 years ago by ▴ 670
6
votes
4
replies
2.7k
views
the coordinates of exons of RefSeq or ENSEMBL genes
txdb genome exons
updated 4.8 years ago by 25k • written 4.8 years ago by ▴ 670
4
votes
4
replies
2.8k
views
using limma and edgeR for differential expression of Drop-seq/10xGenomics scRNA-seq data
limma edgeR simplesingleCell scran scater
updated 4.8 years ago by ★ 28k • written 4.8 years ago by ▴ 670
4
votes
4
replies
982
views
normalization of RNA-seq data after over-expressing the transcription factors
limma deseq2 voom edgeR
updated 4.8 years ago by ★ 28k • written 4.8 years ago by ▴ 670
170 results • Page 1 of 4
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6