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737 results • Page
1 of 15
Sort: Rank
Rank
Views
Votes
Replies
2
votes
0
replies
187
views
Tool:
Sequence alignment on split read event such as inversion, duplication and complex nested events.
minimap
alignment
NGMLR
2 days ago by
micah
▴ 30
4
votes
5
replies
4.4k
views
Tool:
GRIDSS: the Genomic Rearrangement IDentification Software Suite
Assembly
Structural-Variation
Variant-Calling
updated 4 days ago by
dario.garvan
▴ 520 • written 7.2 years ago by
d-cameron
★ 2.9k
1
vote
3
replies
296
views
Tool:
Converting Degree Minutes (DM) to Decimal Degrees (DD) using python script
Minutes
Decimal
offtopic
Degrees
python
updated 4 days ago by
Ram
44k • written 6 days ago by
kuttibiotech2009
▴ 30
1
vote
1
reply
203
views
Tool:
Collect dispersed executable files and run them by using bingo.
bingo
updated 4 days ago by
Ram
44k • written 5 days ago by
dwpeng
▴ 10
1
vote
1
reply
253
views
Tool:
Converting Nebula Genomics Data to 23andMe Format
23andMe
Nebula
updated 14 days ago by
Michael
54k • written 14 days ago by
Guillermo
• 0
4
votes
9
replies
2.7k
views
Tool:
CANEapp, a user-friendly application for automated next generation transcriptomic data analysis
RNA-Seq
written 8.3 years ago by
dvelmeshev
• 0
2
votes
0
replies
212
views
Tool:
pySEACR
Peak-Calling
CUT-and-RUN
5 weeks ago by
Adam
▴ 30
2
votes
3
replies
511
views
Tool:
DEGap - an online tool for Differential Gene Expression analysis
degap
6 weeks ago by
Anastasia
▴ 10
2
votes
1
reply
376
views
Tool:
TGSFilter, An ultra-fast and efficient tool for long reads filtering and trimming
genome-assembly
filtering
reads
trimming
updated 8 weeks ago by
Yingzi
• 0 • written 8 weeks ago by
Huiyang
▴ 190
0
votes
0
replies
242
views
Tool:
MicrobiomePhylo: A Comprehensive Platform for Advanced Microbiome Amplicon Sequencing Data Analysis and Visualization
microbiome
analysis
data
16S
8 weeks ago by
camillatafuro
• 0
85
votes
46
replies
9.3k
views
15 follow
Tool:
ChatGPT optimized for bioinformatics questions
gpt
updated 9 weeks ago by
LauferVA
4.2k • written 11 months ago by
Sasha
▴ 850
5
votes
2
replies
2.5k
views
Tool:
Coovar: Co-Occurring Variant Analyzer
snp
variant-annotation
updated 10 weeks ago by
GenoMax
142k • written 11.6 years ago by
Christian
★ 3.0k
1
vote
4
replies
439
views
Tool:
A c library for reading and writing sequences in fasta and fastq format.
seqio
10 weeks ago by
dwpeng
▴ 10
1
vote
0
replies
255
views
Tool:
HFKReads, an ultra-fast and efficient tool for high frequency kmer sequencing reads extraction
kmer
organelle
metagenomic
assembly
12 weeks ago by
Huiyang
▴ 190
0
votes
0
replies
295
views
Tool:
Microbiome Analysis: Comprehensive 16S Meta-barcoding Analysis in R with Phyloseq - On Sale Now!
R
microbiome
16S
phyloseq
analysis
11 weeks ago by
camillatafuro
• 0
0
votes
0
replies
180
views
Tool:
Annotating the epitope-specificity of TCRs with bioinformatics
Annotation
TCR
Epitope-specificity
3 months ago by
tim
• 0
10
votes
12
replies
1.9k
views
Tool:
PanDepth, an ultra-fast and efficient genomic tool for coverage calculation
bam
paf
depth
cram
coverage
3 months ago by
Huiyang
▴ 190
1
vote
0
replies
276
views
Tool:
gxf2bed: A high-performance GTF/GFF-to-BED converter written in Rust
convert
gff
gtf
bed
3 months ago by
alejandrogzi
▴ 120
3
votes
8
replies
744
views
Tool:
Generate unit-tested, ready-to-run pipelines using natural language prompting
NGS
pipeline
genomics
cloud
AI
updated 3 months ago by
Ram
44k • written 3 months ago by
Kevin
▴ 50
3
votes
0
replies
241
views
Tool:
GW: fast genome browser and variant exploration tool
genome
genomics
variant-annotation
genome-browser
visualization
3 months ago by
clealk
▴ 50
1
vote
0
replies
227
views
Tool:
BIRCH3.90 - BioLegato, Apple Silicon, Updates
genomics
sequence
transcriptomics
3 months ago by
brian.fristensky
▴ 460
0
votes
0
replies
218
views
Tool:
Get `BPCells` with Bioconductor workflow
single
cell
BPCells
3 months ago by
Yun
• 0
1
vote
3
replies
690
views
Tool:
retroSeeker: discovering a large set of retrotransposons in humans and any species
Mobile-element
Evolution
Retrotransposon
4 months ago by
lsp03yjh
▴ 860
1
vote
0
replies
289
views
Tool:
tinybio in OpenAI App Store
gpt
4 months ago by
Sasha
▴ 850
0
votes
0
replies
873
views
Tool:
What do you think about Tfinder? a tool to find individual motifs in DNA sequence. Help us ameliorate
Motifs
Transcription-factor
updated 5 months ago by
Ram
44k • written 5 months ago by
Naima
• 0
0
votes
2
replies
418
views
Tool:
Dot_plot_like_in_BLAST, a standalone tool for making dot plots similar to what online BLAST makes
Megablast
Blastn
dot
plot
dotplot
BLAST
updated 5 months ago by
Ram
44k • written 5 months ago by
shelkmike
★ 1.2k
1
vote
0
replies
253
views
Tool:
De Novo assembler (in C, supports MPI parallelism) available for experimenting with
de-novo
trie
olc
updated 5 months ago by
Ram
44k • written 5 months ago by
Graham
▴ 10
4
votes
0
replies
477
views
Tool:
NOEL: An extremely fast Non-Overlapping Exon Length calculator written in Rust
gene-annotation
exon-length
5 months ago by
alejandrogzi
▴ 120
9
votes
4
replies
2.3k
views
Tool:
SEDA (SEquence DAtaset builder): a desktop tool for processing FASTA files containing DNA and protein sequences
fasta
sequences
java
6 months ago by
Hugo
▴ 380
0
votes
0
replies
550
views
Tool:
deepBreaks: a machine learning tool for identifying and prioritizing genotype-phenotype associations
python
genetics
updated 6 months ago by
Ram
44k • written 6 months ago by
Mahdi
• 0
1
vote
1
reply
409
views
Tool:
Coremine Medical Introduction - connect - discover - share | explore and visualize associations
drug-target
drug
gene
updated 6 months ago by
Ram
44k • written 6 months ago by
Coremine Medical
▴ 20
0
votes
0
replies
247
views
Tool:
massSight: A tool to combine LC-MS datasets
qc
metabolomics
omics
R
lc-ms
6 months ago by
Chiraag
• 0
0
votes
0
replies
284
views
Tool:
Coremine Medical used in study to discover differentially expressed genes in multiple sclerosis
drugs
drug-targets
genes
6 months ago by
Coremine Medical
▴ 20
0
votes
0
replies
325
views
Tool:
Introducing SpectraView - a tool to transform your literature reviews!
gene
protein
drug-discovery
updated 7 months ago by
Ram
44k • written 7 months ago by
DrugDiscoveryTech
• 0
4
votes
0
replies
399
views
Tool:
MyBrain-Seq: A Pipeline for MiRNA-Seq Data Analysis in Neuropsychiatric Disorders
mybrain-seq
miRNA-seq
pipeline
neuropsychiatry
docker
7 months ago by
dannyzimm
▴ 50
12
votes
4
replies
1.1k
views
Tool:
BBTools 39.03 released!
BBTools
BBMap
7 months ago by
Brian Bushnell
20k
2
votes
2
replies
604
views
Tool:
Python and R without installing apps
Resources
updated 8 months ago by
jena
▴ 290 • written 8 months ago by
gallardodiazmiriam
▴ 20
0
votes
0
replies
301
views
Tool:
MTMCSKAT package for GWAS with efficient resampling, parallelization
SKAT
MTMC-SKAT
updated 8 months ago by
Ram
44k • written 8 months ago by
michael.nagle
▴ 100
11
votes
2
replies
785
views
Tool:
Pipeline Generator
gpt
updated 9 months ago by
LauferVA
4.2k • written 9 months ago by
Sasha
▴ 850
13
votes
6
replies
5.2k
views
Tool:
csvtk - a cross-platform, efficient, practical and pretty CSV/TSV toolkit
CSV
Golang
TSV
9 months ago by
shenwei356
8.5k
3
votes
1
reply
842
views
Tool:
pyGenomeViz - A genome visualization python package for comparative genomics
genome
comparative-genomics
python
microbial-genomics
visualization
updated 4 months ago by
n.s.j.vandervelden
▴ 90 • written 9 months ago by
moshi
▴ 150
9
votes
9
replies
4.7k
views
Tool:
pyCirclize - Circular visualization in Python
visualization
circos
matplotlib
genome
python
updated 9 months ago by
shuo
• 0 • written 17 months ago by
moshi
▴ 150
0
votes
2
replies
7.9k
views
Tool:
The script to install the required packages for gene expression analysis using DESeq2 for downstream analysis and visualization
R
RNAseq
installation
DESeq2
9 months ago by
Aditya naman
• 0
1
vote
0
replies
604
views
Tool:
Create realistic VCF genomic data in just a few lines of Python code
genomic
linkage
python
vcf
tool
disequilibrium
9 months ago by
Rémy
▴ 10
1
vote
2
replies
3.6k
views
Tool:
How Study Aromatic-Aromatic Interactions And Amino-Aromatic Interactions Of Protein-Ligands Complexes In The Pdb.
pdb
updated 10 months ago by
Jiyao Wang
▴ 370 • written 10.6 years ago by
bagaruwa
• 0
3
votes
2
replies
801
views
Tool:
Launched: Genozip 15 with co-compression of BAM and FASTQ
BAM
CRAM
compression
FASTQ
updated 10 months ago by
DBScan
▴ 300 • written 10 months ago by
Divon
▴ 230
0
votes
1
reply
514
views
Tool:
tinybio added sources & chat history - (ChatGPT optimized for bioinformatics questions)
gpt
updated 8 weeks ago by
Shaunak
• 0 • written 10 months ago by
Sasha
▴ 850
7
votes
4
replies
2.9k
views
Tool:
TreeView3 - An update to java TreeView
TreeView3
java
updated 9 months ago by
nach.mcnach
▴ 10 • written 5.9 years ago by
rleach
▴ 180
0
votes
0
replies
379
views
Tool:
Unleashing the Power of Custom NGS Software for Cutting-Edge Research
DNAseq
pipeline
bisulfiteSeq
RNAseq
updated 11 months ago by
rpolicastro
13k • written 11 months ago by
David Langenberger
11k
5
votes
3
replies
874
views
Tool:
Experiment Generator
gpt
updated 11 months ago by
LauferVA
4.2k • written 11 months ago by
Sasha
▴ 850
737 results • Page
1 of 15
Recent Votes
Answer: tensorQTL interaction issue
Answer: converting transcript IDs (Ensembl) to gene symbols in R
Answer: converting transcript IDs (Ensembl) to gene symbols in R
Comment: Trimming tool
Answer: Trimming tool
Comparing ATAC-seq narrowPeak Files from Chicken and Mouse
Comparing ATAC-seq narrowPeak Files from Chicken and Mouse
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Recent Replies
Comment: How can we convert a vcf to fasta, so that I can blast some genes against that w
by
Ram
44k
You cannot *convert* a VCF to a FASTA as they have vastly different information content. Please explain your process - what exactly do you …
Comment: Comparing Analysis Strategies for scRNA-seq Data: Separate vs. Merged Analysis o
by
Shukai
• 0
Thank you Ram for the comments! Noted for future posts.
Comment: Where to find old version of GATK best practice
by
Zhenyu Zhang
★ 1.2k
I am looking for diagrams, and step-by-step instructions of how to build my pipelines. I think the github is only helpful if you are a wdl…
Comment: Where to find old version of GATK best practice
by
Zhenyu Zhang
★ 1.2k
oh, this is helpful. Thanks.
Comment: Comparing Analysis Strategies for scRNA-seq Data: Separate vs. Merged Analysis o
by
Ram
44k
1. You can edit your post and add relevant details. There is no need to add separate comments with relevant details especially when it's no…
Answer: Functional enrichment analysis for unique gene IDs
by
geneontologyhelp
▴ 400
If you are looking at producing GO annotations, we currently only recommend InterProScan, and basically only for novel organisms or where t…
Answer: Question about samtools view flags (paired reads vs. properly paired reads)
by
Pierre Lindenbaum
161k
paired reads = the experiment was a paired end assay: each fragment was sequenced on 5' and 3', two FASTQ files are generated by the seque…
Answer: z-score of gene set
by
Matthias Zepper
4.6k
The z-score is a measure of how many standard deviations a particular data point is from the mean of a distribution. A positive z-score ind…
Answer: converting transcript IDs (Ensembl) to gene symbols in R
by
bk11
★ 2.5k
You can do as following: library(biomaRt) # Set up the Ensembl BioMart connection ensembl <- useEnsembl(biomart = "genes",…
Comment: How can we convert a vcf to fasta, so that I can blast some genes against that w
by
Pierre Lindenbaum
161k
well you try to use FastaAlternateReferenceMaker https://gatk.broadinstitute.org/hc/en-us/articles/360037594571-FastaAlternateReferenceMak…
Comment: z-score of gene set
by
bk11
★ 2.5k
Can you please tell us what will be your propose of z-score calculation?
Comment: DRAGEN gVCF files and joint calling GATK-GenomicsDB
by
DBScan
▴ 300
I think I did it once, but why would you use GATK with DRAGEN gVCF files? If you have a DRAGEN, the iterative gVCF Genotyper does a much fa…
Answer: Practical Haplotype Graph v2 not finding correct paths
by
beantkapoor16
▴ 10
So, I just tested it and it's performing much better now. Most of the haplotype paths are coming from the expected haplotypes (australasica…
Comment: Kraken2 Custom Database non-deterministic results
by
Bjorn
• 0
Thank you!
Comment: Generating a Bed file from a Fasta file
by
Pierre Lindenbaum
161k
there is not enough information. you have to show us the command you used, a snapshot of your fasta...
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