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0 votes
0 replies
474 views
XP-CLR input files
xpclr
updated by GenoMax GenoMax • written by aqilfarooqqais267 • aqilfarooqqais267
0 votes
7 replies
3.2K views
Convert VCF files to input file format requiered by XP-CLR1.0 software
xp-clr
updated by aqilfarooqqais267 • aqilfarooqqais267 • written by Famf • Famf
0 votes
3 replies
1.1K views
Whether personalized pangenome considers allele frequency
pangenome vg
written by Wang Cong • Wang Cong
0 votes
2 replies
1.9K views
High Variability when Peak Calling with SEACR
macs2 seacr chip
updated by RD • RD • written by hunter.a.ogg • hunter.a.ogg
1 vote
1 reply
698 views
Blog: Molecular Simulation: GROMACS Benchmark on 30 different GPUs on SaladCloud
benchmark gpu cloud
written by Prashanth • Prashanth
0 votes
1 reply
1.5K views
Job: Job: Bioinformatics Postdoc Position at Columbia University
aging single-cell
written by Qinghua • Qinghua
0 votes
7 replies
3.3K views
Speed up umap parameter optimisation?
rna-seq umap r
updated by jared.andrews07 jared.andrews07 • written by noodlejackson • noodlejackson
0 votes
1 reply
906 views
Eigencor plot after limma::removeBatchEffect
deseq2 pcatools
updated by jared.andrews07 jared.andrews07 • written by f2ff7a46 • f2ff7a46
0 votes
2 replies
878 views
Error in running MToolBox
ngs variant-calling mtoolbox mitochondria
written by adarsh • adarsh
0 votes
3 replies
1.0K views
Extract reads that didn't contribute to miRNAs following miRDeep2 analysis
mirna mirdeep2 small rna
updated by GenoMax GenoMax • written by jammydodger123456 • jammydodger123456
0 votes
3 replies
1.5K views
Should I Use p-value or Adjusted p-value for Differential Methylation Analysis (Illumina EPIC v2)?
dnamethylation illuminaepicv2 differentialmethylationanalysis
updated by i.sudbery i.sudbery • written by Srinka • Srinka
0 votes
1 reply
851 views
MuSE sump: Segmentation fault (core dumped)
error muse core somatic sump dump
updated by Arup Ghosh Arup Ghosh • written by Marie • Marie
0 votes
1 reply
1.1K views
Unicycler error
human illumina libraries unicycler
updated by Arup Ghosh Arup Ghosh • written by María José • María José
2 votes
1 reply
1.8K views
Job: (Open to Volunteer/Unpaid Roles) Entry-Level Computational Biologist Seeking Internship
scrna internship transcriptomics single-cell
written by Haziq • Haziq
1 vote
0 replies
699 views
Tool: ggalign: Bridging the Grammar of Graphics and Biological Multilayered Complexity
ggplot2 ggalign
updated by GenoMax GenoMax • written by Yun • Yun
0 votes
2 replies
672 views
Sample replicate for transcriptomic
replicate transcriptomic sample magna daphnia
written by Jane • Jane
0 votes
0 replies
486 views
CIBERSORTx error when running sc-RNA seq reference dataset
cibersortx cibersort
written by zhbyrd • zhbyrd
0 votes
0 replies
573 views
Issue with Taxonomy Assignment Using Kraken and Custom Database (BOLD, Nemabiome) in QIIME2 shotgun
bold qiime2 taxonomy assignment kraken2
written by ohtang7 • ohtang7
0 votes
3 replies
1.1K views
STAR: same read is shown as 'multi-mapping' to the same location of the genome
samtools star rnaseq
updated by lieven.sterck lieven.sterck • written by klsywd • klsywd
0 votes
0 replies
343 views
Reconstruction of ancestral phenotypes
phenotypes
written by 1473989647 • 1473989647
0 votes
6 replies
1.9K views
ERROR: SAM file generated by BWA is corrupted and cannot be processed with SAMTOOLS
samtools bwa ngs alignment sam
updated by jkbonfield jkbonfield • written by Luwell • Luwell
1 vote
4 replies
928 views
Breaking my 400MB gtf gile into 8 seperate 50MB gtf files
gtf
written by Ezekiel • Ezekiel
0 votes
2 replies
752 views
PDX RNA seq counts
counts rnaseq pdx
written by ChumBucket2024 • ChumBucket2024
0 votes
2 replies
937 views
Machine learning for drug sensitivity prediction and signature gene
machine-learning drug-sensitivity
written by qudrat.nii • qudrat.nii
0 votes
1 reply
799 views
Filter SAM file for read pairs that align on same strand
samtools alignment sam
updated by Pierre Lindenbaum Pierre Lindenbaum • written by kmyers2 • kmyers2
0 votes
3 replies
1.5K views
Seeking Access to Large-Scale Population Genomics Datasets for VCF Data Analysis
populationgenomics genomes vcf genomics
updated by nitya • nitya • written by Rohan • Rohan
0 votes
1 reply
789 views
Missing variants in chrMT Phase3
mutation vcf 1000genomes mitochondria
updated by Ram Ram • written by nitya • nitya
0 votes
0 replies
585 views
pseudobulks on patch-seq
edger patch-seq deseq2 pseudobulks
written by yves33 • yves33
0 votes
1 reply
859 views
How to obtain spliced and unspliced counts from parse biosciences generated count data ?
scrnaseq transcriptomics single-cell
updated by Bastien Hervé Bastien Hervé • written by shome • shome
0 votes
4 replies
880 views
Select one microarray probe for gene (Affymetrix) - tools 2025?
probes microarray
written by Nona • Nona
0 votes
1 reply
849 views
Picard AddOrReplaceReadGroups,
human illumina libraries picard
updated by Pierre Lindenbaum Pierre Lindenbaum • written by María José • María José
0 votes
0 replies
508 views
CellChat interactions
r cellchat
written by solo.albif • solo.albif
0 votes
1 reply
984 views
Data Normalization of RNA-seq gene expression
tmm classification metastasisrna-seq
updated by Ram Ram • written by maryak • maryak
0 votes
3 replies
1.3K views
GTF file generated by stringtie merge has two source ensemble and stringtie
merge stringtie
updated by i.sudbery i.sudbery • written by musk • musk
0 votes
5 replies
1.3K views
Filter duplicates with picard
human illumina libraries picard
updated by Pierre Lindenbaum Pierre Lindenbaum • written by María José • María José
0 votes
7 replies
1.7K views
Which Tool and Database for metagenomic classification at Species level with 16S
taxonomy 16s amplicon metagenomic
written by Aytaç • Aytaç
0 votes
1 reply
732 views
Converting SRA Data to FASTQ and Saving Directly to S3
sra-toolkit aws sra s3
updated by GenoMax GenoMax • written by Soohyun • Soohyun
1 vote
1 reply
819 views
AMR tools for low-yield long read sequencing (MinION)
metagenomics amr resfinder minion
updated by colindaven colindaven • written by AHerik • AHerik
0 votes
4 replies
3.3K views
Scaffolding hifiasm assembly with CLR?
hifiasm scaffolding clr hifi
updated by lieven.sterck lieven.sterck • written by Phlupp • Phlupp
0 votes
3 replies
3.2K views
STARsolo parameters for 10X Multiome kit (scRNA-seq & scATAC-seq)
scrna-seq scatac-seq starsolo 10x_multiome xenopus
updated by tranhangk15cnsh • tranhangk15cnsh • written by thanospas • thanospas
1 vote
14 replies
5.6K views
Understanding bowtie2 for short reference sequences
bowtie2 alignment
updated by GenoMax GenoMax • written by Sina • Sina
0 votes
2 replies
1.0K views
Unexpected behavior of `vg surject`
surject vg
written by Ilya • Ilya
0 votes
1 reply
1.0K views
Mitochondrial Genome Variant Calling and Annotation Tools
illumina amplicon mitochondria
updated by Pierre Lindenbaum Pierre Lindenbaum • written by adarsh • adarsh
0 votes
1 reply
818 views
Ginkgo tool for CNV
cnv single-cell wgs
updated by Ram Ram • written by drajangirija • drajangirija
2 votes
5 replies
3.7K views
Differential methylation rate analysis using modkit for m6A
m6a modkit differential-methylation-analysis
written by baibhu1234 • baibhu1234
0 votes
4 replies
1.9K views
Different annotations for different isoforms from the same gene
metatranscriptomics trinity rna-seq isoform
written by Chikae • Chikae
0 votes
17 replies
3.8K views
Unable to get to BAM file from SAM using samtools
samtools bam sam
written by alejandro.mejiam1 • alejandro.mejiam1
0 votes
1 reply
905 views
ID_REF in GEO Dataset
gene geo microarray ncbi
updated by GenoMax GenoMax • written by nimisha.r • nimisha.r
0 votes
3 replies
1.7K views
ChIP-Seq
chip-seq optimal design samples experimental
updated by ATpoint ATpoint • written by joseph.landry • joseph.landry
0 votes
4 replies
2.0K views
How do I annotate cell types in CIBERSORTx when using the scRNA-seq option?
cibersortx signature scrna-seq matrix
updated by jared.andrews07 jared.andrews07 • written by Haad • Haad
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