Pinned Repositories
abaixe
BETA - Pipeline for the positional analysis of ribosome profiling data
adaptive_gene_expression
A collection of code used in the analysis of "Multilevel gene expression changes in lineages containing adaptive copy number variants"
CNV-detection-from-NGS
Detecting copy number variation
CNV_essentiality
temp repository in preparation of publication (Grace et al. 2022)
conenctorinho
A small script that takes the RGI ARO hits and finds them in a MaxBin2 bin output file, then outputs the connection.
COSantana_2021
Collection of supplemental scripts and analysis for Santana et al. Biogeosciences. 2021
CVish
Structural variant breakpoint identifier.
heranca
A small script for reducing false positive variant calls (VCFs) using lineage information
mugio
Inverted Repeat Junction identifier for use with ONT (MinION) sequencing.
uorfseqr
uORF identification pipeline using ribosome profiling data
pspealman's Repositories
pspealman/mugio
Inverted Repeat Junction identifier for use with ONT (MinION) sequencing.
pspealman/CVish
Structural variant breakpoint identifier.
pspealman/heranca
A small script for reducing false positive variant calls (VCFs) using lineage information
pspealman/uorfseqr
uORF identification pipeline using ribosome profiling data
pspealman/abaixe
BETA - Pipeline for the positional analysis of ribosome profiling data
pspealman/adaptive_gene_expression
A collection of code used in the analysis of "Multilevel gene expression changes in lineages containing adaptive copy number variants"
pspealman/CNV-detection-from-NGS
Detecting copy number variation
pspealman/CNV_essentiality
temp repository in preparation of publication (Grace et al. 2022)
pspealman/conenctorinho
A small script that takes the RGI ARO hits and finds them in a MaxBin2 bin output file, then outputs the connection.
pspealman/COSantana_2021
Collection of supplemental scripts and analysis for Santana et al. Biogeosciences. 2021
pspealman/Project_Carolino
pspealman/Project_Impact
A small repository containing scripts used in the analysis of Santana et al. 2021
pspealman/Project_Juliana_River_basin
Collection of scripts and primary data for analysis of metagenomic data.
pspealman/RNAseq
The Gresham Lab RNAseq pipeline
pspealman/tiny_rgi
small tools for the parsing and presentation of CARD RGI data
pspealman/uorfish
An updated version of uORFseqr that uses molecularly identified uORFs to train a lightweight DNN for uORF prediction
pspealman/WGS_assemble_pipeline
Pipeline for WGS assembly using hybrid methods
pspealman/windchime
RNAseq alignment and analysis pipleline