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0 votes
3 replies
1.3K views
lncRNA from TCGA
lihc tcga lncrna
updated by ATpoint 9.1K • | written by jain72744 1
0 votes
1 reply
804 views
How do I know whether it is not a failure of ChIPseq data
chipseq
updated by dthorbur 350 • | written by Herman Einstein 0
2 votes
6 replies
2.1K views
The bioinformatics paper reappears, but the results are significantly different from the original results
reproducibility
written by yuanj 4
0 votes
2 replies
1.2K views
Bioinformatics variant calling software
variant-calling
updated by Jeremy Leipzig 2.3K • | written by cFll 0
0 votes
0 replies
687 views
Saccharomyces cerevisiae orthologs in plants
database orthologs
written by dec986 38
0 votes
4 replies
1.6K views
Gene Ontology question
differential-expression gene-ontology
updated by Ram 4.5K • | written by Bhawna 0
0 votes
0 replies
455 views
Looking for Comprehensive Virtual Screening Examples with Results Validation
drug-discovery virtual-screening molecular-docking
updated by Ram 4.5K • | written by Stefano 0
0 votes
1 reply
781 views
samflags to removes mapped concordantly >1 times
samtools bowtie2 metagenome
updated by jkbonfield 133 • | written by pompam_5904 0
0 votes
2 replies
1.3K views
Trying to write bwa mem -> samtools view -> samtools sort loop
bwa samtools mapping genome
updated by Pierre Lindenbaum 17K • | written by Lee 0
0 votes
0 replies
659 views
TransDecoder ORF score to filter "noise" from de novo transcriptome assembly
transdecoder assembly transcriptome
updated by Ram 4.5K • | written by tdamiani 0
0 votes
2 replies
1.1K views
Problem with SRA
sra
updated by Ram 4.5K • | written by Daniel 0
0 votes
0 replies
543 views
Should I keep taxa that have 0 counts when calculating alpha diversity?
shannon-weiner
written by DNAngel 26
0 votes
1 reply
2.1K views
How to do DE between cells expressing specific gene in scanpy?
scrna-seq single-cell scanpy
updated by Ram 4.5K • | written by bioinfo 19
0 votes
5 replies
1.9K views
BUSCO analysis failed due to Duplicate of sequence in Input genome fasta. How to solve this problem ?
duplicate busco.
updated by GenoMax 16K • | written by Sony Nguyen 2
0 votes
8 replies
5.0K views
How to BLAST more than 5 sequences against UniProt database?
blast protein uniprot
written by Riq 5
0 votes
4 replies
1.8K views
UniProt accession number
protein uniprot
updated by Elisabeth Gasteiger 243 • | written by 1204079053 0
2 votes
3 replies
13K views
Genotype representation with 0, 1, 2 - what do they mean?
genotype representation phasing imputation gwas
updated by far 1 • | written by Volka 18
0 votes
1 reply
1.9K views
MMSeqs2 Removing Redundancy
mmseqs mmseqs2
updated by GenoMax 16K • | written by dthorbur 350
0 votes
7 replies
18K views
How To Annotate Methylation 450K?
methylation
updated by Vassilis 0 • | written by liu4gre 21
0 votes
0 replies
377 views
Transcription Factor Binding sites intersecting Transposable Elements
te tfbp
written by M.Adiba 0
0 votes
5 replies
1.7K views
WGCNA website
wgcna
updated by GenoMax 16K • | written by Dave Carlson 223
1 vote
2 replies
2.9K views
What is the relationship between Illumina P5 P7, universal adapters, and TruSeq Adapter Index 7?
fastqc ngs
written by octpus616 14
0 votes
4 replies
2.1K views
kmer analysis for genome size estimation
kmer merqury allotetraploid pacbio hifiasm
written by rj.rezwan 2
0 votes
5 replies
1.6K views
Incongruencies in GT assignment by Freebayes
depth freebayes heterozygous genotype
written by virginia.baraja 0
0 votes
3 replies
3.0K views
Problems with Nextflow to run NanoRtax Pipeline
nanortax nextflow nanopore
updated by colindaven 844 • | written by kerianaleerivera 1
0 votes
1 reply
1.3K views
How plot multiple enrichment plot together
singlecell
updated by dthorbur 350 • | written by synat.keam 12
0 votes
5 replies
1.5K views
Tool to Identify Gene, Regulatory Role, and Function at Integration Sites
chromosome regulatory integration
updated by Pierre Lindenbaum 17K • | written by kelpotus22 0
0 votes
0 replies
504 views
Extracting tcga images for cnn in r
rstudio python tcga-lihc svs
written by jain72744 1
0 votes
4 replies
1.6K views
filtering VCF sites and impose whatever excluded ad missing
conditions vcf filters bcftools
written by Matteo Ungaro 16
0 votes
3 replies
1.1K views
Peptide identification from Mass spec data
transcriptomics proteins mass-spec
updated by Ram 4.5K • | written by atharvakarkare14 4
0 votes
7 replies
2.1K views
DESeq: too low p-value for RNAseq
r deseq p-value rna-seq fdr
updated by Papyrus 310 • | written by doramora 1
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 1
0 votes
4 replies
2.6K views
cloupe to 10x format
seurat 10x cloupe
updated by Ram 4.5K • | written by M'zelle 0
0 votes
1 reply
2.1K views
How do I annotate a ggtree object with bootstrap values?
ggtree phylogenetic-tree r bootstrap
updated by inedraylig 7 • | written by Yarabi 0
1 vote
9 replies
2.1K views
frequency of each variant per sample
freebayes variant-frequency
updated by Pierre Lindenbaum 17K • | written by emilydolivo97 1
0 votes
0 replies
577 views
RobustRankAggreg rankMatrix subscript out of boundaries
robustrankaggreg microarray r rankmatrix
written by hagl 2
0 votes
3 replies
6.1K views
MSF Data Analysis
msf proteomics thermo proteome discoverer
updated by Bioinformatics_16 0 • | written by JJDollar 13
0 votes
1 reply
663 views
Meta analysis of transcriptomic data
meta-analysis
written by Raman 0
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 0
0 votes
0 replies
446 views
Handling data from RNA-seq experiement with negative cell controls / Water samples
rnaseq
written by kvn95ss 2
0 votes
1 reply
843 views
Large differences in Differentially expressed genes between two datasets.
ppi string cytoscape degs
updated by Scooter 31 • | written by rijul 0
0 votes
0 replies
492 views
Seurat-DE analysis
seurat de
written by odi 3
0 votes
1 reply
904 views
sorted bam file generated from gff transcript fastas, how to get counts with HTseq?
htseq bam
updated by Ram 4.5K • | written by RNAseqer 30
0 votes
5 replies
1.4K views
samtools filtering
samtools
updated by jkbonfield 133 • | written by san96 19
0 votes
2 replies
4.4K views
Fail to install umap-learn in R
cellchat r
updated by Ram 4.5K • | written by synat.keam 12
0 votes
4 replies
4.6K views
Genome completeness and contamination: CheckM vs CheckM2
genome-completeness contamination
written by beacamara 0
1 vote
3 replies
1.9K views
How to extract rows with specific values in R for all the columns?
r
written by Lakshmi 2
0 votes
0 replies
766 views
Normalization approaches of RNAseq data before WGCNA
deseq2 voom wgcna
written by gimenagomez 0
0 votes
2 replies
1.8K views
STACKS PCR duplicate removal
pcr vcf stacks rad-seq
written by maxrwjones 7
0 votes
2 replies
2.2K views
How to fasten FTP file type download speed
sra ftp geo ncbi
written by Aaliya 0
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