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0 votes
5 replies
1.4K views
Tool to Identify Gene, Regulatory Role, and Function at Integration Sites
chromosome regulatory integration
updated by Pierre Lindenbaum Pierre Lindenbaum • written by kelpotus22 • kelpotus22
0 votes
0 replies
504 views
Extracting tcga images for cnn in r
rstudio python tcga-lihc svs
written by jain72744 • jain72744
0 votes
4 replies
1.6K views
filtering VCF sites and impose whatever excluded ad missing
conditions vcf filters bcftools
written by Matteo Ungaro • Matteo Ungaro
0 votes
3 replies
1.1K views
Peptide identification from Mass spec data
transcriptomics proteins mass-spec
updated by Ram Ram • written by atharvakarkare14 • atharvakarkare14
0 votes
7 replies
2.0K views
DESeq: too low p-value for RNAseq
r deseq p-value rna-seq fdr
updated by Papyrus Papyrus • written by doramora • doramora
0 votes
0 replies
1.1K views
Looking to improve my understanding of Homer's mergePeaks function: unclear of how the merged file is created?
homer atacseq
written by Ronin • Ronin
0 votes
4 replies
2.6K views
cloupe to 10x format
seurat 10x cloupe
updated by Ram Ram • written by M'zelle • M'zelle
0 votes
1 reply
2.0K views
How do I annotate a ggtree object with bootstrap values?
ggtree phylogenetic-tree r bootstrap
updated by inedraylig • inedraylig • written by Yarabi • Yarabi
1 vote
9 replies
2.1K views
frequency of each variant per sample
freebayes variant-frequency
updated by Pierre Lindenbaum Pierre Lindenbaum • written by emilydolivo97 • emilydolivo97
0 votes
0 replies
567 views
RobustRankAggreg rankMatrix subscript out of boundaries
robustrankaggreg microarray r rankmatrix
written by hagl • hagl
0 votes
3 replies
6.1K views
MSF Data Analysis
msf proteomics thermo proteome discoverer
updated by Bioinformatics_16 • Bioinformatics_16 • written by JJDollar • JJDollar
0 votes
1 reply
658 views
Meta analysis of transcriptomic data
meta-analysis
written by Raman • Raman
0 votes
3 replies
1.6K views
How do I handle it if there are multiple ENSEMBL IDs in one gene symbol in the scRNA sequencing data?
seurat scrna-seq count-matrix
written by JY • JY
0 votes
0 replies
435 views
Handling data from RNA-seq experiement with negative cell controls / Water samples
rnaseq
written by kvn95ss • kvn95ss
0 votes
1 reply
836 views
Large differences in Differentially expressed genes between two datasets.
ppi string cytoscape degs
updated by Scooter Scooter • written by rijul • rijul
0 votes
0 replies
474 views
Seurat-DE analysis
seurat de
written by odi • odi
0 votes
1 reply
896 views
sorted bam file generated from gff transcript fastas, how to get counts with HTseq?
htseq bam
updated by Ram Ram • written by RNAseqer RNAseqer
0 votes
5 replies
1.4K views
samtools filtering
samtools
updated by jkbonfield jkbonfield • written by san96 • san96
0 votes
2 replies
4.3K views
Fail to install umap-learn in R
cellchat r
updated by Ram Ram • written by synat.keam • synat.keam
0 votes
4 replies
4.5K views
Genome completeness and contamination: CheckM vs CheckM2
genome-completeness contamination
written by beacamara • beacamara
1 vote
3 replies
1.9K views
How to extract rows with specific values in R for all the columns?
r
written by Lakshmi • Lakshmi
0 votes
0 replies
761 views
Normalization approaches of RNAseq data before WGCNA
deseq2 voom wgcna
written by gimenagomez • gimenagomez
0 votes
2 replies
1.8K views
STACKS PCR duplicate removal
pcr vcf stacks rad-seq
written by maxrwjones • maxrwjones
0 votes
2 replies
2.2K views
How to fasten FTP file type download speed
sra ftp geo ncbi
written by Aaliya • Aaliya
0 votes
1 reply
834 views
Input file of Haploview
haploview tagsnp
updated by LauferVA LauferVA • written by Đạt • Đạt
0 votes
6 replies
1.9K views
Error in running Mauve alignner in Ubuntu 20.04
java linux aligner mauve
written by marongiu.luigi marongiu.luigi
0 votes
2 replies
807 views
RNA-Seq isoforms identification
rna-seq
updated by Andres • Andres • written by latita.atun • latita.atun
0 votes
2 replies
1.1K views
Removing adapters in all the RNAseq samples regardless if they have or not, is it correct?
fastqc trimming adapters cutadapt rnaseq
updated by dsull dsull • written by ev97 • ev97
0 votes
0 replies
932 views
ChIPseeker annotation on gene or transcript level
chipseeker annotation chip-seq
written by zea • zea
1 vote
0 replies
1.0K views
Herald: The Biostar Herald for Wednesday, April 03, 2024
herald
written by Biostar Biostar
0 votes
0 replies
504 views
Integration of scRNA, a conceptual doubt
seurat scrna integration
written by edoardofilippi1998 • edoardofilippi1998
0 votes
0 replies
733 views
Diffbind and DESeq2 comparison for differential sites
diffbind deseq2
updated by Ram Ram • written by Ankit Ankit
0 votes
0 replies
532 views
News: Online course: Food Traceability Using Genomic Tools
nanopore genomic-tools illumina food-traceability
updated by Ram Ram • written by Physalia-courses Physalia-courses
0 votes
1 reply
1.8K views
What does the part "mature miRBase miRNAs not detected by miRDeep2" actually mean in a miRDeep2 analysis? Should those hits be included in results?
mirdeep2 mirna
updated by binaryCode • binaryCode • written by Debasish • Debasish
1 vote
3 replies
1.7K views
How to run BRIG on Ubuntu 22?
brig ubuntu
updated by Reno • Reno • written by marongiu.luigi marongiu.luigi
0 votes
2 replies
964 views
utr sequence retrieval from UCSC
utr sequencing ucsc genome
updated by GenoMax GenoMax • written by kim • kim
0 votes
0 replies
447 views
NicheNet cell-cell communication analysis outcome
nichenet scrna-seq
written by QX • QX
0 votes
9 replies
3.6K views
Can index hopping lead to more reads in samples?
index-hopping novoseq illumina ngs seqeucning
written by Assa Yeroslaviz Assa Yeroslaviz
0 votes
0 replies
701 views
When to merge ChIP-Seq data?
homer chip-seq macs3
updated by Ram Ram • written by Thomas • Thomas
0 votes
2 replies
1.4K views
minimac3 download - Connection timed out
gwas minimac3 imputation
written by SeoG • SeoG
8 votes
8 replies
17K views
MAF vs VAF
sequencing
updated by AshleeThomson • AshleeThomson • written by lauren.wahyudi • lauren.wahyudi
0 votes
1 reply
1.0K views
mirbase gff and mature fastas for custom STAR index genome?
mirbase indexing star genome
written by RNAseqer RNAseqer
0 votes
1 reply
1.4K views
naming the UMAP cluster
seurat scanpy umap
updated by Hamid Ghaedi Hamid Ghaedi • written by orzrzlyo • orzrzlyo
0 votes
0 replies
489 views
WGCNA modulePreservation on three expression sets
wgcna
written by CTLong • CTLong
0 votes
3 replies
1.5K views
Multiple iterations of sorted bam output files with picard SortSam
picard
updated by GenoMax GenoMax • written by shpak.max • shpak.max
1 vote
2 replies
2.1K views
Issues Using DMRcate and rmSNPandCH
dmrcate r
updated by t.peters • t.peters • written by Indira • Indira
0 votes
4 replies
2.8K views
Bowtie2 mapping is slow
metagenomics bowtie2 mapping read
updated by colindaven colindaven • written by Md Moinuddin • Md Moinuddin
0 votes
1 reply
899 views
The order of those tied genes will be arbitrary, which may produce unexpected results.
fgsea
written by Gordon • Gordon
0 votes
0 replies
818 views
Problem in merging multiple samples VCF file obtained from Structural variant caller Lumpy
sv variant-calling vcf
updated by Ram Ram • written by sardana.thakur.prachi • sardana.thakur.prachi
0 votes
1 reply
1.1K views
How can we remove a sub-pathway from a parent pathway in Reactome Database?
pathway reactome
updated by NancyTLi • NancyTLi • written by Muiz Khan • Muiz Khan
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