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0 votes
4 replies
2.0K views
GSVA with a genelist on a "per-cluster" basis
gsva scrna-seq genelist
written by bio_info • bio_info
0 votes
0 replies
385 views
Checking Sequence Duplication or errors in a de novo transcriptome assembly
duplicatedsequences assemblyerror redundantsequences denovotranscriptome
written by ZuelTech • ZuelTech
0 votes
0 replies
467 views
Pausin index for qpro-seq
pausing qpro-seq index
written by daffodil • daffodil
0 votes
2 replies
1.1K views
Selecting appropriate expressed repeat annotation for Velocyto
velocyto repeatmasker scrnaseq
written by merdanosman • merdanosman
0 votes
1 reply
737 views
Regions got skipped due to length
getfasta bedtools
updated by Pierre Lindenbaum Pierre Lindenbaum • written by Muhammad • Muhammad
0 votes
10 replies
1.9K views
Using a different reference transcriptome assembly from different RNA seq libraries (but same species)
transcriptomeassembly libraries
written by ZuelTech • ZuelTech
0 votes
3 replies
1.6K views
Error function vst in DESeq2
vst deseq2
updated by yura.grabovska • yura.grabovska • written by Larissa • Larissa
0 votes
3 replies
1.1K views
Tumor purity in TCGA data analysis
tcga tumor-purity
updated by Ram Ram • written by nuorain • nuorain
0 votes
0 replies
725 views
Help with EIGENSOFT's SmartPCA
smartpca eigensoft pca
written by Persona • Persona
0 votes
0 replies
543 views
Matching of GSVA score of a single sample to its drug sensitivity
gsva
written by marionette.kent • marionette.kent
0 votes
1 reply
1.1K views
Software For MHC Typing Using Mouse NGS (WES or RNAseq)?
mhc
updated by mourisl • mourisl • written by kilcdincer • kilcdincer
0 votes
1 reply
1.4K views
DMRCate mean diff values
design methylation dmrcate
updated by james.hawley • james.hawley • written by Eren • Eren
0 votes
1 reply
563 views
Looking for any study/research paper that used gcPathogen database
gcpathogen
updated by GenoMax GenoMax • written by Albert • Albert
0 votes
2 replies
1.4K views
Convert two Haplotypes into diploid genome assembly
goneme assembly
written by Yiyi • Yiyi
0 votes
1 reply
902 views
Performance Issues with GATK4 PathSeqPipelineSpark on 35bp Bulk-RNA Unmapped Reads
pathseq
updated by colindaven colindaven • written by xutongzhen1996 • xutongzhen1996
0 votes
12 replies
3.9K views
GATK3 error message
gatk next-gen
updated by Ram Ram • written by shuksi1984 • shuksi1984
1 vote
8 replies
3.0K views
ATAC-seq peaks centered between TSS and TES
compute-matrix atac atac-seq tss-enrichment enrichment-graph
written by buffealo • buffealo
0 votes
3 replies
1.1K views
Identifying true variants between two strains despite low coverage
vcf bcftools mpileup variant-calling
updated by GenoMax GenoMax • written by bioinfo1994 • bioinfo1994
0 votes
0 replies
969 views
Are there "gold standard" datasets for identification of antibiotic resistance genes from metagenomic samples?
amr antibiotic resistance classification metagenomics
written by Bertalan_Takacs • Bertalan_Takacs
0 votes
7 replies
1.8K views
how to find the number of exome bases covered in bam file
bam coverage
updated by GenoMax GenoMax • written by Smilesky • Smilesky
0 votes
3 replies
1.1K views
lacking reference transcriptome
transcriptome enrichment
updated by ATpoint ATpoint • written by Sarah • Sarah
0 votes
0 replies
626 views
News: Introduction to CRISPR-Cas9 course
genome-editing crispr evolution
updated by Ram Ram • written by Physalia-courses Physalia-courses
0 votes
3 replies
1.4K views
How to count the number and proportion of different barcode combinations in DNA sequencing results
dna-sequencing barcode
updated by Ram Ram • written by tulip • tulip
0 votes
4 replies
1.7K views
Challenges with Parallelizing BUSCO for Phylogenetic Tree Construction on Large Genome Dataset
busco hpc slurm
updated by Ram Ram • written by Mir-Mammad • Mir-Mammad
0 votes
1 reply
816 views
Clinvar Filter
human genome vcf clinvar
updated by GenoMax GenoMax • written by shabbas12 • shabbas12
0 votes
0 replies
552 views
DiffBind ProfilePlot Having High Wide High Signals
diffbind atac-seq
written by B.N. • B.N.
0 votes
0 replies
801 views
MAF file visualization on UCSC genome browser Custom Track
maf track cactus ucsc custom
written by Santex • Santex
0 votes
4 replies
2.6K views
samtools BGZF block error
samtools
written by Novice • Novice
0 votes
0 replies
679 views
How to get the information for plotting methylation percentage along genomic regions?
methylkit dmrs genomation bismark
written by Sofia • Sofia
0 votes
2 replies
1.1K views
Filtering the vcf file
vcf
written by trezini • trezini
0 votes
4 replies
1.2K views
How do N's in DNA sequences affect multi-sequence alignments for PCR assay testing?
multi-sequence pcr alignment
written by Ryan • Ryan
0 votes
0 replies
664 views
News: Course - RNA Sequencing Data with R/Bioconductor
r bioconductor rna-seq differential-expression-analysis
updated by Ram Ram • written by Physalia-courses Physalia-courses
0 votes
0 replies
733 views
stringdb - where is a description of the database download tables?
stringdb
updated by GenoMax GenoMax • written by mcsimenc • mcsimenc
0 votes
0 replies
692 views
MS(CSIT) VS MS(DS)
computer-science career data-science
updated by Ram Ram • written by anasjamshed anasjamshed
0 votes
1 reply
777 views
Find SfiI cleavage sites in the human genome
motif meme sfii fimo
updated by GenoMax GenoMax • written by Mitmischer • Mitmischer
1 vote
0 replies
558 views
Inflammatory genes identification
cancer inflammatory-genes rna-seq
updated by Ram Ram • written by Jaber • Jaber
0 votes
0 replies
749 views
Job: Postdoctoral Research Fellowship Program at the American Museum of Natural History
postdoctoral research
written by Info-rggs • Info-rggs
0 votes
2 replies
2.6K views
Dealing with 2 different layers of counts within RNA assay in seurat
r seurat
updated by bk11 • bk11 • written by Varun Gupta Varun Gupta
0 votes
3 replies
1.5K views
Understanding IGV
vcf igv bam wgs
updated by GenoMax GenoMax • written by zizigolu zizigolu
0 votes
4 replies
2.1K views
Help with subset seurat object by a column in metadata
seurat
written by Chris • Chris
1 vote
19 replies
5.3K views
DESEQ with time series data on mutant vs. wild-type?
deseq
updated by mazegriff • mazegriff • written by Megan • Megan
0 votes
10 replies
10K views
GATK "We encountered a non-standard non-IUPAC base in the provided reference: '13"
gatk
updated by skdv2522 • skdv2522 • written by Phismil • Phismil
0 votes
2 replies
1.1K views
Bos Taurus, Bos Indicus and Bubalus bubalis GTF,GFF,GFF3 file
buffalo
updated by Ram Ram • written by Muhammad • Muhammad
0 votes
7 replies
2.0K views
How can I extract 3'UTR of bacteria (Pseudomonas aeruginosa) without using R?
prokaryotes utr
updated by Michael Dondrup Michael Dondrup • written by Anshika • Anshika
0 votes
2 replies
1.0K views
vdjtools
vdjtools
updated by GenoMax GenoMax • written by yueli7 yueli7
0 votes
0 replies
823 views
Understanding Tumor Contamination vs. Cellularity
cancer purity cnv
written by George • George
2 votes
1 reply
846 views
Selection Pressure Analysis
paml positive-selection evolutionary-analysis
updated by Ram Ram • written by upasana • upasana
0 votes
2 replies
1.2K views
Using scRNA-seq to draw concrete evidence about transitional cluster
scrna-seq
written by odi • odi
0 votes
3 replies
1.1K views
MAKER has many FAILED
genome softmask maker annotation
updated by GenoMax GenoMax • written by san96 • san96
0 votes
1 reply
768 views
Where can I locate cancer genome?
cancer genome whole exome
updated by GenoMax GenoMax • written by Chloe • Chloe
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