Ecosyste.ms: Packages
An open API service providing package, version and dependency metadata of many open source software ecosystems and registries.
pypi.org "RNA" keyword
linearfold-unofficial 0.1
Python interface to LinearFold, a linear-time RNA secondary structure prediction tool1 version - Latest release: 10 months ago - 1 dependent package - 43 downloads last month - 1 stars on GitHub - 1 maintainer
sshmm 1.0.7
A sequence-structure hidden Markov model for the analysis of RNA-binding protein data.11 versions - Latest release: almost 6 years ago - 1 dependent repositories - 33 downloads last month - 1 maintainer
entrain-spatial 0.0.1
A single-cell analysis package to elucidate environmental factors controlling cell differentiatio...1 version - Latest release: 12 months ago - 8 downloads last month - 1 maintainer
rnaglib 2.0.12
RNAglib: Tools for learning on the structure of RNA using 2.5D geometric representations16 versions - Latest release: 4 months ago - 1 dependent repositories - 91 downloads last month - 11 stars on GitHub - 2 maintainers
unirna 0.0.1
The Large-Scale Pre-Trained Model for RNA1 version - Latest release: about 1 year ago - 4 downloads last month - 1 maintainer
steprna 1.0.6
Align short RNA seqeuncing reads to determine the length of of overhang.9 versions - Latest release: over 1 year ago - 1 dependent repositories - 53 downloads last month - 4 stars on GitHub - 1 maintainer
ipanemap 0.1.6
integrative probing analysis of nucleic acids empowered by multiple accessibility profiles7 versions - Latest release: almost 2 years ago - 1 dependent repositories - 26 downloads last month - 1 maintainer
multimolecule 0.0.3
Neural Networks for RNA, DNA, and Protein.5 versions - Latest release: 26 days ago - 132 downloads last month - 0 stars on GitHub - 1 maintainer
bpforms 0.0.16
Unambiguous representation of modified DNA, RNA, and proteins12 versions - Latest release: almost 4 years ago - 7 dependent repositories - 85 downloads last month - 6 stars on GitHub - 2 maintainers
s-rna-tools 0.0.3
Tools for handling Small RNA sequences.3 versions - Latest release: over 1 year ago - 15 downloads last month - 0 stars on GitHub - 1 maintainer
utrbert 1.0.1
Deciphering 3'UTR mediated gene regulation using interpretable deep representation learning2 versions - Latest release: 10 months ago - 42 downloads last month - 3 stars on GitHub - 1 maintainer
pyjellyfish 1.2.0
Python interface to the Jellfish DNA k-mer counter5 versions - Latest release: 10 months ago - 2 dependent packages - 1 dependent repositories - 31 downloads last month - 3 stars on GitHub - 1 maintainer
taurenmd 0.11.2
A command-line interface for analysis routines in Molecular Dynamics data.40 versions - Latest release: almost 2 years ago - 1 dependent repositories - 260 downloads last month - 8 stars on GitHub - 1 maintainer
fqutils 0.0.0.dev6
fastq file utils in python5 versions - Latest release: over 6 years ago - 1 dependent repositories - 8 downloads last month - 1 maintainer
pytransform 0.2.3 💰
Applies transformation to structures and writes new pdb file14 versions - Latest release: over 8 years ago - 5 dependent repositories - 1.24 thousand downloads last month - 43 stars on GitHub - 1 maintainer
rnaviewparser 0.1.3
A RNAVIEW parser1 version - Latest release: over 5 years ago - 1 dependent repositories - 20 downloads last month - 1 maintainer
fish-prode 1.1.0
A FISH probe design web interface.3 versions - Latest release: almost 6 years ago - 1 dependent repositories - 27 downloads last month - 8 stars on GitHub - 1 maintainer
parephase 0.1.0
Detects phasing of 5'PARE data around stop codons1 version - Latest release: about 7 years ago - 1 dependent repositories - 9 downloads last month - 0 stars on GitHub - 1 maintainer
congas-old 0.0.4
Copy Number genotyping from single cell RNA sequencing4 versions - Latest release: over 2 years ago - 19 downloads last month - 10 stars on GitHub - 1 maintainer
ifpd2q 1.0.4
An iFISH probe design pipeline (II)5 versions - Latest release: 3 months ago - 2 dependent packages - 155 downloads last month - 0 stars on GitHub - 1 maintainer
ifpd 2.1.1
An iFISH probe design pipeline, with web interface included.21 versions - Latest release: over 2 years ago - 1 dependent repositories - 72 downloads last month - 8 stars on GitHub - 1 maintainer
arv 0.9.2
A fast 23andMe raw genome file parser11 versions - Latest release: about 7 years ago - 139 downloads last month - 114 stars on GitHub - 1 maintainer
umitools 0.3.4
A toolset for handling sequencing data with unique molecular identifiers (UMIs)3 versions - Latest release: about 6 years ago - 2 dependent repositories - 64 downloads last month - 12 stars on GitHub - 1 maintainer
trxtools 0.2.2
Python tools facilitating bioinformatic analysis of nascent transcripts and transcriptomic data.3 versions - Latest release: over 1 year ago - 18 downloads last month - 2 stars on GitHub - 1 maintainer
rnajena-sugar
Simple containers for RNA and DNA sequence analysis2 versions - 0 stars on GitHub
deepprotein 0.0.0
General Framework for Deep Learning on Macro Molecules1 version - Latest release: 6 months ago - 11 downloads last month - 0 stars on GitHub - 1 maintainer
ifpd2 1.0.1a1
An iFISH probe design pipeline (II)2 versions - Latest release: over 2 years ago - 1 dependent repositories - 13 downloads last month - 2 stars on GitHub - 1 maintainer
rnabench 0.1.2
RNA benchmarking tools and utilities.2 versions - Latest release: 7 months ago - 10 downloads last month - 1 maintainer
fuchs 0.3.1
FUll circular RNA CHaracterization from RNA-Seq2 versions - Latest release: over 1 year ago - 1 dependent repositories - 13 downloads last month - 3 stars on GitHub - 1 maintainer
entrain 0.0.79
A single-cell analysis package to elucidate environmental factors controlling cell differentiatio...16 versions - Latest release: 8 months ago - 75 downloads last month - 1 maintainer
learna-tools 0.1.0
RNA Design with automated reinforcement learning.1 version - Latest release: 4 months ago - 11 downloads last month - 1 stars on GitHub - 1 maintainer
farseernmr 2.0.0.dev0
A software suite for automatic treatment, analysis and plotting of large and multivariable datase...1 version - Latest release: over 4 years ago - 1 dependent repositories - 14 downloads last month - 10 stars on GitHub - 1 maintainer
rnabert 0.0.1
RNA BERT1 version - Latest release: 3 months ago - 8 downloads last month - 1 maintainer
mirmachine 0.2.13
MirMachine15 versions - Latest release: 4 months ago - 1 dependent repositories - 44 downloads last month - 4 stars on GitHub - 1 maintainer
pyrna 1.0.0.dev4 💰
View RNA secondary structure and BLAST search it for identification4 versions - Latest release: about 6 years ago - 2 dependent repositories - 14 downloads last month - 5,003 stars on GitHub - 1 maintainer
cellsnake 0.2.0
cellsnake14 versions - Latest release: about 1 year ago - 49 downloads last month - 29 stars on GitHub - 1 maintainer
linearpartition-unofficial 0.2
Python interface to LinearPartition, a linear-time RNA secondary structure prediction tool2 versions - Latest release: 5 months ago - 50 downloads last month - 1 stars on GitHub - 1 maintainer
Top 10.0% on pypi.org
7 versions - Latest release: 9 months ago - 7 dependent packages - 3 dependent repositories - 2.9 thousand downloads last month - 270 stars on GitHub - 2 maintainers
viennarna 2.6.4
A library for the prediction and comparison of RNA secondary structures.7 versions - Latest release: 9 months ago - 7 dependent packages - 3 dependent repositories - 2.9 thousand downloads last month - 270 stars on GitHub - 2 maintainers
sccoda 0.1.9
A Dirichlet-Multinomial approach to identify compositional changes in count data.11 versions - Latest release: over 1 year ago - 1 dependent repositories - 280 downloads last month - 117 stars on GitHub - 1 maintainer
oligo-melting 2.0.2
A Python3 package for melting temperature calculation of oligonucleotides hybridization and secon...8 versions - Latest release: over 3 years ago - 1 dependent repositories - 73 downloads last month - 10 stars on GitHub - 1 maintainer
promotercalculator 1.2.2
Salis Lab's promoter-calculator (Barrick Lab Fork)4 versions - Latest release: 6 months ago - 1 dependent package - 1 dependent repositories - 47 downloads last month - 1 stars on GitHub - 1 maintainer
vica 0.1.5
find highly divergent DNA and RNA viruses in microbiomes3 versions - Latest release: about 6 years ago - 1 dependent repositories - 38 downloads last month - 5 stars on GitHub - 1 maintainer
variant2pubmed 0.0.1
Search for human genetic variants in pubmed using text-mining techniques1 version - Latest release: 10 months ago - 2 dependent repositories - 1 maintainer
intron 0.1.0
Intron retention tool2 versions - Latest release: about 4 years ago - 1 dependent repositories - 41 downloads last month - 2 stars on GitHub - 1 maintainer
bioprot 0.2.0
A package for DNA, RNA and protein sequence manipulation1 version - Latest release: 24 days ago - 0 stars on GitHub
cryptkeeper 0.1
Package for predicting functional components of DNA sequences1 version - Latest release: 6 months ago - 18 downloads last month - 1 stars on GitHub - 1 maintainer
rnadecoder 1.0.4
Use genetic code table as a basis for translating a strand of mRNA.1 version - Latest release: almost 2 years ago - 10 downloads last month - 0 stars on GitHub - 1 maintainer
Top 3.0% on pypi.org
33 versions - Latest release: 3 months ago - 28 dependent packages - 34 dependent repositories - 7.55 thousand downloads last month - 388 stars on GitHub - 2 maintainers
scvelo 0.3.2
RNA velocity generalized through dynamical modeling33 versions - Latest release: 3 months ago - 28 dependent packages - 34 dependent repositories - 7.55 thousand downloads last month - 388 stars on GitHub - 2 maintainers
cpat 3.0.5
CPAT (Coding Potential Assessment Tool).7 versions - Latest release: 5 months ago - 203 downloads last month - 9 stars on GitHub - 1 maintainer
drtransformer 1.0
Heuristic cotranscriptional folding using the nearest neighbor energy model.1 version - Latest release: over 1 year ago - 26 downloads last month - 2 stars on GitHub - 1 maintainer
pyseacr 0.3
Sparse Enrichment Analysis for CUT&RUN1 version - Latest release: 2 months ago - 0 stars on GitHub - 1 maintainer
topicvelo 0.0.2
TopicVelo: Dissection and Integration of Bursty Transcriptional Dynamics for Complex Systems2 versions - Latest release: 6 months ago - 39 downloads last month - 12 stars on GitHub - 1 maintainer
rrmscorer 1.0.9
RRM-RNA score predictor5 versions - Latest release: 8 months ago - 26 downloads last month - 1 maintainer
sprint 0.1.7
A toolkit for accurately identifying RNA editing sites without the need to filter SNPs16 versions - Latest release: about 7 years ago - 1 dependent repositories - 95 downloads last month - 1 maintainer
shannonca 0.0.7
Informative Dimensionality Reduction via Shannon Component Analysis7 versions - Latest release: over 2 years ago - 1 dependent repositories - 43 downloads last month - 28 stars on GitHub - 1 maintainer
rnascrutiny 1.3
Tool for simulating and analyzing single-cell RNA-sequencing data.13 versions - Latest release: over 6 years ago - 1 dependent repositories - 8 downloads last month - 1 maintainer
congas 0.0.78
Copy Number genotyping from single cell RNA sequencing63 versions - Latest release: 8 months ago - 441 downloads last month - 10 stars on GitHub - 1 maintainer
metagene 0.0.0.dev50
Metagene Profiling Analysis and Visualization42 versions - Latest release: 28 days ago - 252 downloads last month - 1 maintainer
Related Keywords
DNA
20
bioinformatics
14
biology
8
cell
5
single cell
5
dna
5
rna
4
python
4
oligonucleotide
4
velocity
4
hacktoberfest
4
sequence
4
protein
4
genome
4
hybridization
4
fluorescence
4
FISH
4
fish
3
ifish-probe
3
ViennaRNA
3
Protein
3
transcriptomics
3
scRNA
3
deep-learning
3
structure
3
single-cell
3
tensorflow
3
secondary structure
3
Biology
2
Bio
2
bio
2
Biochemistry
2
Molecular Biology
2
Structural Biology
2
Proteins
2
deep
2
sequencing
2
proteins
2
prediction
2
secondary
2
computational
2
analysis
2
Bioinformatics
2
Copy-number
2
Cancer
2
CNA
2
CNV
2
scDNA
2
web-interface
2
probe
2
ifish
2
gui
2
design
2
Barrick
2
genomics
2
editing
2
miRNA
2
receptor
2
ligand
2
differentiation
2
RNA structure
2
machine-learning
2
stochastic
2
rna-seq
2
composition
1
programming
1
constraints
1
CODA
1
compositional analysis
1
compositional-changes
1
single-cell-rna-seq
1
statistical-analysis
1
chemistry
1
melting
1
temperature
1
modeling
1
salt
1
denaturant
1
duplex
1
duplexes
1
formamide
1
magnesium
1
to
1
Design
1
Nuclear Magnetic Resonance
1
biomolecular
1
nmr
1
protein-protein-interaction
1
protein-structure
1
detection
1
metagene
1
covariance-model
1
mirna
1
generative
1
BLAST
1
inference
1
synthetic
1
simulation
1
genetic
1
single
1