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4 votes
0 replies
995 views
Herald: The Biostar Herald for Monday, April 29, 2024
herald
written by Biostar 380
0 votes
1 reply
644 views
Two references 1. genome 2. plasmid for bowtie2
wgs bacterialgenomics alignment
updated by GenoMax 16K • | written by RT 0
0 votes
1 reply
975 views
Using Delly/Pindel/breakdancer for Identifying Transgene Insertion Sites in Mouse Genome
breakdancer insertion pindel variation delly
updated by trausch 202 • | written by zec018 0
0 votes
0 replies
741 views
LEfSe
lefse
written by benkosta 0
1 vote
1 reply
827 views
How should I handle read counts derived from SGSeq when I want to build DEXSeqDataSet object
dexseq dexseqdataset sgseq
updated by sanjana B M 0 • | written by Sara 4
0 votes
4 replies
1.8K views
Limma Analysis Agilent Microarray Data (GPL1708)
microarray limma agilent
written by hagl 2
0 votes
7 replies
1.9K views
RNAseq one control two conditions, shared and exclusive genes
conditions rnaseq multiple rstudio
updated by Mohamed Abderrahmane 2 • | written by matteo.levorato 0
0 votes
2 replies
1.2K views
Longitudinal analysis of subpopulations: which approach is better?
differential-expression deg model
written by Lluís R. 124
0 votes
2 replies
924 views
How to solve DESeq2 Error in checkFullRank(modelMatrix)?
rna-seq deseq2
written by DOBI 0
0 votes
0 replies
573 views
Comparing peptide sequences with MS/MS peptide data using MaxQuant
transcriptomics mass-spectrometry proteins
updated by Ram 4.5K • | written by atharvakarkare14 4
0 votes
16 replies
3.6K views
How many reads for WGS Sequencing?
bacterial-genomics wgs
written by RT 0
0 votes
2 replies
901 views
What should I consider as FASTA for dataset?
pdb fasta
written by Nafi 0
4 votes
24 replies
7.4K views
NGS forensics: how to know if data is fabricated
fastq star ngs illumina
updated by i.sudbery 2.3K • | written by noodle 65
0 votes
0 replies
1.1K views
Differential accessibility using DiffBinf
diffbind
written by shlo12 2
0 votes
2 replies
1.5K views
Can I merge Hi-C fastq files from different lanes?
genomeassembly bwa-mem2 hi-c
updated by GenoMax 16K • | written by Winter 0
1 vote
7 replies
4.2K views
Differential Expression using Isoseq-supplemented reference transcriptome
rna-seq salmon isoseq
updated by Gordon Smyth 916 • | written by Calum 1
0 votes
1 reply
879 views
Finding batch and outlayers
pca
updated by mbyvcm 48 • | written by Tigran 0
0 votes
2 replies
1.1K views
PDB related issue
rcsb pdb
updated by noodle 65 • | written by Nafi 0
0 votes
0 replies
558 views
News: Online course: Genome Annotation
genome-assembly genome-annotation
written by Physalia-courses 281
0 votes
8 replies
3.1K views
What does it mean single base resolution in sequencing?
snp sequencing
updated by LauferVA 497 • | written by jinyu 1
1 vote
9 replies
4.8K views
Cannot process all the reads in a fast5 file?
metagenome base-calling fastq nanopore
updated by Ram 4.5K • | written by Gio 2
0 votes
5 replies
2.6K views
Fetch table from clinvar database according to a list of rsid
python clinvar perl
written by ashaneev07 5
0 votes
2 replies
1.4K views
Downloading full alignments from Pfam
pfam
written by bef1 0
0 votes
1 reply
1.4K views
Can I run cellassign on samples independently if there is batch effect present?
rna-seq r cellassign batch-effect
updated by Francesco 2 • | written by gt 3
0 votes
2 replies
1.6K views
ChIP-seq datasets: input samples omitted?
chip-seq normalization ngs
updated by i.sudbery 2.3K • | written by RelativeOptics 4
0 votes
0 replies
489 views
adjusting for confounders in LMER in R
confounders lmer r
updated by dariober 1.5K • | written by rene.j.erhardt 3
0 votes
0 replies
525 views
STAR total splices (in Log.final) vs collapsed splice junctions (in SJ.out.tab)
star
written by tnminh89 1
0 votes
0 replies
639 views
Filter low express genes in microarray data
microarray
written by Chris 36
0 votes
3 replies
2.1K views
absolute path for symbolic links in Snakefile
snakemake
updated by Jesse 94 • | written by yifangt86 6
0 votes
2 replies
1.1K views
Hide positions in alignment with 99% "–" characters to ignore single sequence insertions?
alignment gaps
updated by Jesse 94 • | written by Broccoli 0
0 votes
3 replies
3.3K views
Source other conda environments in a nextflow pipeline when nextflow itself is in a conda environment?
hpc conda nextflow
updated by Arup Ghosh 402 • | written by chaco001 4
0 votes
3 replies
1.7K views
Help understanding how KEGG Ortholog `K00004 ` has 3 ECs associated with it (EC:1.1.1.4, 1.1.1.-, 1.1.1.303)?
ontology metagenomics database enzymes genomics
updated by Mensur Dlakic 3.0K • | written by O.rka 75
0 votes
2 replies
1.5K views
Correct way to compare multiple treaments between RNA-Seq samples using edgeR?
rna-seq edger
written by Guille 0
1 vote
1 reply
2.2K views
How to use limma to find differentially expressed genes in response to a continuous variable
limma voom r
written by pairedttest 4
1 vote
6 replies
4.9K views
DNA methylation preprocessing
swan dna methylation funnorm
updated by Ram 4.5K • | written by SYOSY 1
0 votes
0 replies
983 views
Correlation between cell type prediction scores and individual gene expression in spatial transcriptomic datasets
single-cell spatial-transcriptomics
written by biocellbio 0
0 votes
11 replies
3.5K views
Create a new bed file with all pairwise combinations between two other bed files, based on bp distance
snps bed eqtl bedtools
written by J 1
0 votes
6 replies
2.6K views
Heatmap and rna-seq
rna-seq heatmap
updated by dsull 781 • | written by qudrat.nii 4
5 votes
11 replies
18K views
How Can We Find The Info For 3'Utr And 5'Utr In Gencode Gtf File?
utr
updated by cmdcolin 448 • | written by J.F.Jiang 93
0 votes
2 replies
2.0K views
what is the purpose of indexing the reference genome (Kallisto)
indexing kallisto
updated by dsull 781 • | written by Aaliya 1
3 votes
0 replies
784 views
News: Webinar “Learning Single-cell Atlases” with Dr. Fabian Theis, author of Scanpy on May 8
scanpy generative-ai scrna machine-learning
updated by Ram 4.5K • | written by Claire Watson 6
0 votes
2 replies
1.2K views
Rare Disease Variant Pathway Analysis
pathway-analysis
updated by Ram 4.5K • | written by The_PyPanda 1
0 votes
0 replies
803 views
Phasing VCF Files and Analyzing Reads with Multiple Variants
haplotypes vcf phasing
written by HarperReed 1
1 vote
0 replies
807 views
Simulation of label-free bottom-up proteomics expression dataset
label-free bottom-up lc-ms proteomics
written by KABILAN 13
0 votes
0 replies
647 views
Running Phylogenetic Analysis With NCBI Genome
population-genetics phylogenetic
updated by Ram 4.5K • | written by SineWave 0
0 votes
0 replies
438 views
RNA-seq: full length gene
rna-seq
updated by Ram 4.5K • | written by Nargis 0
0 votes
7 replies
2.7K views
gvcf joint calling
wes gatk vcf gvcf
written by zihanss 0
0 votes
0 replies
555 views
Haplotype Phased Assembly Contigs to Chromosome Annotations
assembly phased haplotype annotation
written by turcoa1 0
0 votes
3 replies
1.8K views
Sequence read length shorter than flow cell specification
illumina ngs sequencing
updated by swbarnes2 1.5K • | written by M 1
0 votes
0 replies
675 views
Designing single-stable RNA molecules
structure rna
written by Edna 0
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