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Support duplicate CRISPR guide sequences as long as (anchor, guide sequence) is unique.

Status: Open.

#241 In ArcInstitute/cyto;

· Lioscro opened on Apr 7, 2026

Offset is not automatically detected and integer underflow error

Status: Open.

#221 In ArcInstitute/cyto;

· rfarouni opened on Feb 27, 2026

Output anndata directly (especially zarr!)

development

enhancementNew feature or requestNew feature or request

Status: Open.

#209 In ArcInstitute/cyto;

· ilan-gold opened on Feb 6, 2026

Bioconda recipe

Status: Open.

#205 In ArcInstitute/cyto;

· mjsteinbaugh opened on Jan 23, 2026

allow rerun of specific steps in workflow

Status: Open.

#185 In ArcInstitute/cyto;

· noamteyssier opened on Nov 12, 2025

improve task queue scheduling

development

Status: Open.

#182 In ArcInstitute/cyto;

· noamteyssier opened on Nov 4, 2025

track per-probe-barcode unmapped reads

enhancementNew feature or requestNew feature or request

statisticsrelated to statisticsrelated to statistics

Status: Open.

#122 In ArcInstitute/cyto;

· noamteyssier opened on Aug 12, 2025

create a saturation command

enhancementNew feature or requestNew feature or request

iburelated to IBUrelated to IBU

Status: Open.

#98 In ArcInstitute/cyto;

· noamteyssier opened on Jul 29, 2025

create an ibu sampling command

enhancementNew feature or requestNew feature or request

iburelated to IBUrelated to IBU

Status: Open.

#97 In ArcInstitute/cyto;

· noamteyssier opened on Jul 29, 2025

allow multiple feature flags to cyto map and concatenate them under the hood to support additional transgenes

enhancementNew feature or requestNew feature or request

Status: Open.

#93 In ArcInstitute/cyto;

· noamteyssier opened on Jul 15, 2025

support zstd outputs for ibu

enhancementNew feature or requestNew feature or request

iburelated to IBUrelated to IBU

Status: Open.

#89 In ArcInstitute/cyto;

· noamteyssier opened on Jul 1, 2025