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121,908 results • Page
46 of 2439
Sort: Rank
Rank
Views
Votes
Replies
3
votes
5
replies
1.2k
views
Confusion about different IDs
RefSeq
9 months ago by
zizigolu
★ 4.4k
1
vote
2
replies
1.1k
views
Which pangenome graph (full/clip/filter/sampled) to use when align RNA-seq with mpmap
vg
9 months ago by
Hanc
▴ 10
0
votes
0
replies
452
views
News:
Join us in Poland for the Landscape Genomics course in January 2025!
AdaptationGenomics
Sambada
R
GIS
LandscapeGenomics
updated 9 months ago by
ATpoint
89k • written 9 months ago by
Physalia-courses
★ 2.6k
0
votes
4
replies
2.3k
views
cellranger count for multiple samples
cellranger
single-cell-transcriptomics
10X
8 months ago by
Assa Yeroslaviz
★ 1.9k
0
votes
3
replies
814
views
problem with 16S reverse reads with low quality
soil
amplicon
micorbiome
sequencing
trimmomatic
updated 9 months ago by
hakimbazol
▴ 60 • written 9 months ago by
michele.lamprillo
• 0
0
votes
0
replies
450
views
Process localizer (1) terminated with an error exit status (1) predector error
predector
fungus
9 months ago by
analyst
▴ 70
0
votes
3
replies
1.1k
views
BAM to Bedgraph creating an empty file
Bisulfite-seq
bismark
updated 9 months ago by
hpf0210
• 0 • written 16 months ago by
irebekah.c
• 0
1
vote
2
replies
1.0k
views
Discripancy in miRDeep2.pl and quantifier.pl outputs
miRDeep2
9 months ago by
otieno43
▴ 40
0
votes
0
replies
685
views
Error encountered in clusterSVs function from the script located at MC-paper doc/mc-paper/fly/cluster-svs.R
MC
SVEVAL
9 months ago by
chiyong4783
• 0
5
votes
7
replies
1.9k
views
Extracting nucleotide gene sequence as a single fasta from whole genome data with blastn
blast
cds
alignment
whole-genome
updated 9 months ago by
Michael
56k • written 9 months ago by
Kristen
▴ 10
1
vote
0
replies
1.2k
views
Tutorial:
Fix the "incompatible matrix dimensions" issue in running harmony
Harmony
RNA-seq
single-cell
updated 9 months ago by
Ram
45k • written 9 months ago by
Pei
▴ 240
0
votes
0
replies
476
views
Issues with GBS pipeline, samtools and bwa specifically
samtools
bwa
genotyping
linux
genomics
9 months ago by
dimeresia
▴ 10
0
votes
0
replies
443
views
ChAMP.DMR error - Error in makeGenomicRatioSetFromMatrix
Methylation
EPICarray
ChAMP
9 months ago by
André
• 0
0
votes
0
replies
348
views
umi tools RNA data [transcriptome alignment or genome alignment]
ont
umi_tools
9 months ago by
Shiyi
▴ 40
2
votes
3
replies
1.2k
views
UMI collapsing in single cell
10x
UMI
single-cell
collapse
updated 8 months ago by
i.sudbery
22k • written 9 months ago by
zbidav
▴ 30
0
votes
2
replies
859
views
How to compare the gene profile of two organisms (what genes are in common) using genBank?
genes
genbank
genome
comparison
9 months ago by
marongiu.luigi
▴ 760
1
vote
2
replies
822
views
Does TCGA data only use host reads to make pre-processed data (CNV, Mutations status, RNA-seq)?
rna-seq
copy-number-variation
mutation-status
TCGA
updated 8 months ago by
Zhenyu Zhang
★ 1.3k • written 9 months ago by
yahn
▴ 10
1
vote
2
replies
2.4k
views
HOMER works incorrectly with -sspe option for paired-end reads
ChIP-Seq
HOMER
updated 9 months ago by
Sudarshana
• 0 • written 7.1 years ago by
biostart
▴ 370
2
votes
4
replies
1.0k
views
Pseudoreplicate creation from bam files
chipseq
IDR
shuffle_bam
9 months ago by
sarahmanderni
▴ 130
1
vote
0
replies
519
views
News:
Online course: Genome Assembly and Annotation - 17–21 March
Genome-Assembly
Genome-Annotation
Long-reads
Galaxy
updated 9 months ago by
Ram
45k • written 9 months ago by
Physalia-courses
★ 2.6k
0
votes
0
replies
394
views
Are there any tools that support wobble-base pair alignment?
pair
Wobble-base
9 months ago by
Renqing
• 0
0
votes
1
reply
712
views
WarningNAs produced by integer overflow error using SCTransform
scrna
seurat
updated 9 months ago by
Bastien Hervé
6.5k • written 9 months ago by
Rosie
• 0
2
votes
4
replies
1.6k
views
Unable to integrate separately SCTransformed scRNAseq Seurat Objects
Seurat
updated 9 months ago by
Ram
45k • written 9 months ago by
awsk
• 0
5
votes
11
replies
2.8k
views
Determine type of Pacbio read
sratoolkit
CLR
Pacbio
Hifi
long-reads
updated 9 months ago by
GenoMax
153k • written 9 months ago by
María José
▴ 10
0
votes
1
reply
532
views
Consensus Motif
MSA
Motif
updated 9 months ago by
Mensur Dlakic
★ 30k • written 9 months ago by
prs
▴ 20
4
votes
12
replies
2.2k
views
6 follow
Snakemake-Created Conda Environment Deactivation
Linux
workflow
conda
snakemake
updated 9 months ago by
Marc
▴ 10 • written 12 months ago by
menyawino
• 0
1
vote
2
replies
1.5k
views
Bimodal %GC plot of fastqc output in RNASeq
Rice
RNA-Seq
Illumina
fastqc
GC
updated 9 months ago by
Ram
45k • written 5.3 years ago by
devbt15
▴ 30
3
votes
1
reply
620
views
how to calculate gene length for TPM
counts
tpm
reads
updated 9 months ago by
ATpoint
89k • written 9 months ago by
adi.gershon1
▴ 10
0
votes
1
reply
1.1k
views
decoupleR & Transcription Factory Activity Inference: pvalue or padj?
pvalue
padj
decoupleR
updated 9 months ago by
carolofharvest
▴ 50 • written 2.3 years ago by
OST
▴ 10
0
votes
0
replies
480
views
News:
online course: Generalised Linear Models in R
R
GeneralisedLinearModels
GLMs
9 months ago by
Physalia-courses
★ 2.6k
108
votes
110
replies
65k
views
29 follow
Tutorial:
Produce PCA bi-plot for 1000 Genomes Phase III - Version 2
1000genomes
PLINK
PCA
updated 9 months ago by
Niharika
• 0 • written 7.1 years ago by
Kevin Blighe
89k
0
votes
2
replies
1.3k
views
DMRcate ranges liftover hg19 to hg38
DMRcate
Liftover
DMR
Methylation
annotation
updated 9 months ago by
t.peters
▴ 20 • written 19 months ago by
sativus
▴ 20
0
votes
0
replies
1.1k
views
Job:
2-year Postdoc Fellowship in Bioinformatics of Paleogenomics and AI - Deadline February 1st 2024. Sweden
Postdoc
ancientDNA
paleogenetics
AI
SilkRoad
updated 9 months ago by
colindaven
7.9k • written 9 months ago by
eranelhaik
▴ 30
3
votes
3
replies
1.3k
views
Forum:
What is meant by referring to research studies as "stories"?
articles
science
story
genomics
updated 9 months ago by
ATpoint
89k • written 9 months ago by
mcsimenc
▴ 30
4
votes
7
replies
1.7k
views
10X Genomics Cellranger Transcriptome Alignment for Homo Sapiens and Epstein-Barr virus (EBV) Simuetaneously
EBV
cellranger
scRNA-seq
10X
updated 7 months ago by
GenoMax
153k • written 9 months ago by
Wu-Sheng Zhang
• 0
1
vote
8
replies
1.7k
views
How modified GTF file into a BED file with chromosome aware format?
gtf
refseq
bed
updated 9 months ago by
Juke34
9.3k • written 9 months ago by
mauricio.1313
• 0
1
vote
4
replies
1.1k
views
No gene name
Ensembl
biomart
gene_name
deseq2
updated 9 months ago by
Dave Carlson
★ 2.2k • written 9 months ago by
rajdeepboral00
▴ 70
2
votes
6
replies
1.4k
views
Could someone send me CISA software ?
CISA
9 months ago by
lu_baicheng
• 0
0
votes
2
replies
762
views
Circos
visualisation
circos
updated 9 months ago by
microfuge
★ 2.0k • written 9 months ago by
Ahashan
• 0
0
votes
2
replies
836
views
RPKM value interpretation
RPKM
gene-expression
updated 9 months ago by
rfran010
★ 1.6k • written 9 months ago by
ymd56731
▴ 10
2
votes
2
replies
858
views
Correcting ONT reads - Alternative to vechat?
ONT
correction
updated 9 months ago by
colindaven
7.9k • written 9 months ago by
Crying_monkey
• 0
3
votes
0
replies
21k
views
Herald:
The Biostar Herald for Monday, December 16, 2024
herald
updated 9 months ago by
dariober
15k • written 9 months ago by
Biostar
3.6k
7
votes
7
replies
1.7k
views
Blast with variable number of Ns
blast
updated 9 months ago by
lieven.sterck
15k • written 9 months ago by
samuel.himes
• 0
0
votes
1
reply
455
views
Clinvar contig
clinvar
funcotator
updated 9 months ago by
Pierre Lindenbaum
166k • written 9 months ago by
Phuc Dinh
• 0
1
vote
4
replies
899
views
Extract aligned positions from reads
samtools
target-sequence
sequencing
genomic-coordinates
9 months ago by
María José
▴ 10
0
votes
1
reply
589
views
Differentiate CLR and Hifi readings in datasets
Pacbio
long-reads
Nanopore
minimap2
updated 9 months ago by
GenoMax
153k • written 9 months ago by
María José
▴ 10
0
votes
0
replies
340
views
long time on "INFO: Gathering graphs from forest." before getting the run killed.
structural
whamg
wham
variants
WGS
9 months ago by
thomas.heigl.ibk
• 0
1
vote
2
replies
824
views
Newbie Bioinformatics
beginner
career
updated 9 months ago by
Ram
45k • written 9 months ago by
Genome_Learner
• 0
3
votes
5
replies
2.0k
views
Flye Assembler Nano-Raw vs Nano-HQ options
Genome
assembly
nanopore
flye
9 months ago by
SomeOne
▴ 240
0
votes
1
reply
662
views
cell deconvolution tool Kassandra
cell
deconvolution
RNAseq
Kassandra
TPM
updated 9 months ago by
ATpoint
89k • written 9 months ago by
adR
▴ 130
121,908 results • Page
46 of 2439
Recent Votes
GSEA vs GO enrichment
Blastn and Kraken2 short reads clssification
Live Online course: Bioinformatic tools for transcriptomic data, Oct 2025
Tried building a compact sequence format with 4-bit storage
Comment: Tried building a compact sequence format with 4-bit storage
Answer: Tried building a compact sequence format with 4-bit storage
Tried building a compact sequence format with 4-bit storage
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Physalia-courses
★ 2.6k
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soledad.esteban
▴ 10
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alison.ludzki
• 0
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Recent Replies
Comment: Hifiasm is getting killed while trying to assemble a genome
by
pranavdatar01
• 0
Yes, I did check for adaptor contamination, and did not find any. I have kept all the reads with quality score of more than 30.
Comment: Hifiasm is getting killed while trying to assemble a genome
by
Panos
★ 1.8k
No overlapping reads? Have you checked for contamination?
Comment: Tried building a compact sequence format with 4-bit storage
by
Pranava
▴ 10
I see, but the reason I was planning on using a 4bit system is so that there wouldn't be too much data loss but thank you for the suggesti…
Comment: Splice junctions plots for long-read seq data
by
alison.ludzki
• 0
Thank you! I will check out miso!
Comment: Hifiasm is getting killed while trying to assemble a genome
by
pranavdatar01
• 0
I did subsample the data to 30x coverage. I did run hifiasm on it, the log file did show some contents, but hifiasm ended again, stating th…
Comment: Tried building a compact sequence format with 4-bit storage
by
Alex Reynolds
36k
Using four bits for storage won't beat 2bit, of course, but direct access to a sequence of interest sounds interesting and useful and might…
Comment: Hifiasm is getting killed while trying to assemble a genome
by
Panos
★ 1.8k
Why don't you subsample your HiFi reads and try running hifiasm again? Maybe this will help if you have memory problems. However, I haven't…
Comment: Is total miRNA in EV constant? Implications for library size normalization.
by
Gordon Smyth
★ 8.3k
RNA-seq is very good at relative analyes. It would be straightforward to determine which miRNAs are relatively more abundant, compared to o…
Comment: Tried building a compact sequence format with 4-bit storage
by
Pranava
▴ 10
Woah!!! Thank you very much, Matthias. I honestly didn't even know some of those existed and I will definitely go through them and try to u…
Answer: Tried building a compact sequence format with 4-bit storage
by
Matthias Zepper
5.1k
Hello Pranava, Thanks for sharing your repository. Devising a new file format is an interesting undertaking and certainly a task with many…
Answer: Gene Ontology Enrichment with LOC gene IDs in Common Carp (Cyprinus carpio)
by
GenoMax
153k
`LOC` gene ID's are often assigned to uncharacterized genes and you may not get useful information from databases for them, thus they will …
Comment: Whole Genome Sequencing IG regions
by
GenoMax
153k
> are the calls I am seeing reliable or should I take them with something of a pinch of salt? Not sure what calls you are referring to but…
Comment: RNA-SEQ where only a subset of genes is of interest
by
piffelpaff
• 0
Sorry to revive this ancient thread but I'm currently discussing the same question with some people in my lab and would love to somebody po…
Answer: STARlong for pacbio Isoseq reads
by
YuZJ
• 0
Hello, you may try deSALT (DOI: 10.1186/s13059-019-1895-9, GitHub: ydLiu-HIT/deSALT) or uLTRA (DOI: 10.1093/bioinformatics/btab540, GitHub:…
Comment: Shift in RNA 3' position, Term-Seq vs RNASeq
by
acvill
▴ 350
Without knowing the details of the Term-seq method, could the 38 nt shift be accounted for by the difference in the position of the ribosom…
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