diff --git a/Cargo.lock b/Cargo.lock
index 45663c7..cb5875c 100644
--- a/Cargo.lock
+++ b/Cargo.lock
@@ -32,7 +32,7 @@ dependencies = [
 
 [[package]]
 name = "alevin-fry"
-version = "0.11.0"
+version = "0.11.1"
 dependencies = [
  "ahash",
  "anyhow",
@@ -70,7 +70,7 @@ dependencies = [
  "snap",
  "sprs",
  "statrs",
- "thiserror 2.0.4",
+ "thiserror 2.0.9",
  "typed-builder",
 ]
 
@@ -151,9 +151,9 @@ dependencies = [
 
 [[package]]
 name = "anyhow"
-version = "1.0.94"
+version = "1.0.95"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "c1fd03a028ef38ba2276dce7e33fcd6369c158a1bca17946c4b1b701891c1ff7"
+checksum = "34ac096ce696dc2fcabef30516bb13c0a68a11d30131d3df6f04711467681b04"
 
 [[package]]
 name = "approx"
@@ -222,9 +222,9 @@ checksum = "b048fb63fd8b5923fc5aa7b340d8e156aec7ec02f0c78fa8a6ddc2613f6f71de"
 
 [[package]]
 name = "bstr"
-version = "1.11.0"
+version = "1.11.1"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "1a68f1f47cdf0ec8ee4b941b2eee2a80cb796db73118c0dd09ac63fbe405be22"
+checksum = "786a307d683a5bf92e6fd5fd69a7eb613751668d1d8d67d802846dfe367c62c8"
 dependencies = [
  "memchr",
  "regex-automata",
@@ -254,9 +254,9 @@ checksum = "5ce89b21cab1437276d2650d57e971f9d548a2d9037cc231abdc0562b97498ce"
 
 [[package]]
 name = "bytemuck"
-version = "1.20.0"
+version = "1.21.0"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "8b37c88a63ffd85d15b406896cc343916d7cf57838a847b3a6f2ca5d39a5695a"
+checksum = "ef657dfab802224e671f5818e9a4935f9b1957ed18e58292690cc39e7a4092a3"
 
 [[package]]
 name = "byteorder"
@@ -293,9 +293,9 @@ dependencies = [
 
 [[package]]
 name = "cc"
-version = "1.2.2"
+version = "1.2.5"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "f34d93e62b03caf570cccc334cbc6c2fceca82f39211051345108adcba3eebdc"
+checksum = "c31a0499c1dc64f458ad13872de75c0eb7e3fdb0e67964610c914b034fc5956e"
 dependencies = [
  "jobserver",
  "libc",
@@ -310,9 +310,9 @@ checksum = "baf1de4339761588bc0619e3cbc0120ee582ebb74b53b4efbf79117bd2da40fd"
 
 [[package]]
 name = "chrono"
-version = "0.4.38"
+version = "0.4.39"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "a21f936df1771bf62b77f047b726c4625ff2e8aa607c01ec06e5a05bd8463401"
+checksum = "7e36cc9d416881d2e24f9a963be5fb1cd90966419ac844274161d10488b3e825"
 dependencies = [
  "android-tzdata",
  "iana-time-zone",
@@ -354,7 +354,7 @@ dependencies = [
  "heck",
  "proc-macro2",
  "quote",
- "syn 2.0.90",
+ "syn 2.0.91",
 ]
 
 [[package]]
@@ -380,15 +380,15 @@ checksum = "5b63caa9aa9397e2d9480a9b13673856c78d8ac123288526c37d7839f2a86990"
 
 [[package]]
 name = "console"
-version = "0.15.8"
+version = "0.15.10"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "0e1f83fc076bd6dd27517eacdf25fef6c4dfe5f1d7448bafaaf3a26f13b5e4eb"
+checksum = "ea3c6ecd8059b57859df5c69830340ed3c41d30e3da0c1cbed90a96ac853041b"
 dependencies = [
  "encode_unicode",
- "lazy_static",
  "libc",
- "unicode-width 0.1.14",
- "windows-sys 0.52.0",
+ "once_cell",
+ "unicode-width",
+ "windows-sys 0.59.0",
 ]
 
 [[package]]
@@ -408,18 +408,18 @@ dependencies = [
 
 [[package]]
 name = "crossbeam-channel"
-version = "0.5.13"
+version = "0.5.14"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "33480d6946193aa8033910124896ca395333cae7e2d1113d1fef6c3272217df2"
+checksum = "06ba6d68e24814cb8de6bb986db8222d3a027d15872cabc0d18817bc3c0e4471"
 dependencies = [
  "crossbeam-utils",
 ]
 
 [[package]]
 name = "crossbeam-deque"
-version = "0.8.5"
+version = "0.8.6"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "613f8cc01fe9cf1a3eb3d7f488fd2fa8388403e97039e2f73692932e291a770d"
+checksum = "9dd111b7b7f7d55b72c0a6ae361660ee5853c9af73f70c3c2ef6858b950e2e51"
 dependencies = [
  "crossbeam-epoch",
  "crossbeam-utils",
@@ -436,18 +436,18 @@ dependencies = [
 
 [[package]]
 name = "crossbeam-queue"
-version = "0.3.11"
+version = "0.3.12"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "df0346b5d5e76ac2fe4e327c5fd1118d6be7c51dfb18f9b7922923f287471e35"
+checksum = "0f58bbc28f91df819d0aa2a2c00cd19754769c2fad90579b3592b1c9ba7a3115"
 dependencies = [
  "crossbeam-utils",
 ]
 
 [[package]]
 name = "crossbeam-utils"
-version = "0.8.20"
+version = "0.8.21"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "22ec99545bb0ed0ea7bb9b8e1e9122ea386ff8a48c0922e43f36d45ab09e0e80"
+checksum = "d0a5c400df2834b80a4c3327b3aad3a4c4cd4de0629063962b03235697506a28"
 
 [[package]]
 name = "csv"
@@ -513,7 +513,7 @@ checksum = "d150dea618e920167e5973d70ae6ece4385b7164e0d799fe7c122dd0a5d912ad"
 dependencies = [
  "proc-macro2",
  "quote",
- "syn 2.0.90",
+ "syn 2.0.91",
 ]
 
 [[package]]
@@ -545,9 +545,9 @@ checksum = "60b1af1c220855b6ceac025d3f6ecdd2b7c4894bfe9cd9bda4fbb4bc7c0d4cf0"
 
 [[package]]
 name = "encode_unicode"
-version = "0.3.6"
+version = "1.0.0"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "a357d28ed41a50f9c765dbfe56cbc04a64e53e5fc58ba79fbc34c10ef3df831f"
+checksum = "34aa73646ffb006b8f5147f3dc182bd4bcb190227ce861fc4a4844bf8e3cb2c0"
 
 [[package]]
 name = "equivalent"
@@ -665,7 +665,7 @@ dependencies = [
  "console",
  "number_prefix",
  "portable-atomic",
- "unicode-width 0.2.0",
+ "unicode-width",
  "web-time",
 ]
 
@@ -712,9 +712,9 @@ dependencies = [
 
 [[package]]
 name = "js-sys"
-version = "0.3.74"
+version = "0.3.76"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "a865e038f7f6ed956f788f0d7d60c541fff74c7bd74272c5d4cf15c63743e705"
+checksum = "6717b6b5b077764fb5966237269cb3c64edddde4b14ce42647430a78ced9e7b7"
 dependencies = [
  "once_cell",
  "wasm-bindgen",
@@ -728,9 +728,9 @@ checksum = "bbd2bcb4c963f2ddae06a2efc7e9f3591312473c50c6685e1f298068316e66fe"
 
 [[package]]
 name = "lexical-core"
-version = "1.0.3"
+version = "1.0.5"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "06d7a061b7feb8a4b233a4d90280d13e0965c4e0181566e9ad61af98e210ca9d"
+checksum = "b765c31809609075565a70b4b71402281283aeda7ecaf4818ac14a7b2ade8958"
 dependencies = [
  "lexical-parse-float",
  "lexical-parse-integer",
@@ -741,9 +741,9 @@ dependencies = [
 
 [[package]]
 name = "lexical-parse-float"
-version = "1.0.3"
+version = "1.0.5"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "0029bdee2a94a6c4393a86f7e6921c90f234218fa4f2154bc001c92bc51e8bf5"
+checksum = "de6f9cb01fb0b08060209a057c048fcbab8717b4c1ecd2eac66ebfe39a65b0f2"
 dependencies = [
  "lexical-parse-integer",
  "lexical-util",
@@ -752,9 +752,9 @@ dependencies = [
 
 [[package]]
 name = "lexical-parse-integer"
-version = "1.0.3"
+version = "1.0.5"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "440a2398a08def518ff962b69e7146246c53bad8090e2b75d95fd5a469338958"
+checksum = "72207aae22fc0a121ba7b6d479e42cbfea549af1479c3f3a4f12c70dd66df12e"
 dependencies = [
  "lexical-util",
  "static_assertions",
@@ -762,18 +762,18 @@ dependencies = [
 
 [[package]]
 name = "lexical-util"
-version = "1.0.4"
+version = "1.0.6"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "3100209587e35b13881068ce5a41241b112e0500b4d847ba16be172829c112ff"
+checksum = "5a82e24bf537fd24c177ffbbdc6ebcc8d54732c35b50a3f28cc3f4e4c949a0b3"
 dependencies = [
  "static_assertions",
 ]
 
 [[package]]
 name = "lexical-write-float"
-version = "1.0.3"
+version = "1.0.5"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "27adf08e2f91ff44ab54bbac0c4579303f0865730870f91b58c044df821f114c"
+checksum = "c5afc668a27f460fb45a81a757b6bf2f43c2d7e30cb5a2dcd3abf294c78d62bd"
 dependencies = [
  "lexical-util",
  "lexical-write-integer",
@@ -782,9 +782,9 @@ dependencies = [
 
 [[package]]
 name = "lexical-write-integer"
-version = "1.0.3"
+version = "1.0.5"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "8b4e5d27d742da13f013765f849efc0c4b6173e0e64404546475eb5ee0931e2c"
+checksum = "629ddff1a914a836fb245616a7888b62903aae58fa771e1d83943035efa0f978"
 dependencies = [
  "lexical-util",
  "static_assertions",
@@ -792,9 +792,9 @@ dependencies = [
 
 [[package]]
 name = "libc"
-version = "0.2.167"
+version = "0.2.169"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "09d6582e104315a817dff97f75133544b2e094ee22447d2acf4a74e189ba06fc"
+checksum = "b5aba8db14291edd000dfcc4d620c7ebfb122c613afb886ca8803fa4e128a20a"
 
 [[package]]
 name = "liblzma"
@@ -807,9 +807,9 @@ dependencies = [
 
 [[package]]
 name = "liblzma-sys"
-version = "0.3.9"
+version = "0.3.11"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "6630cb23edeb2e563cd6c30d4117554c69646871455843c33ddcb1d9aef82ecf"
+checksum = "41e2171ce6827cbab9bc97238a58361bf9a526080475f21dbc470e1842258b2d"
 dependencies = [
  "cc",
  "libc",
@@ -913,9 +913,9 @@ dependencies = [
 
 [[package]]
 name = "miniz_oxide"
-version = "0.8.0"
+version = "0.8.2"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "e2d80299ef12ff69b16a84bb182e3b9df68b5a91574d3d4fa6e41b65deec4df1"
+checksum = "4ffbe83022cedc1d264172192511ae958937694cd57ce297164951b8b3568394"
 dependencies = [
  "adler2",
 ]
@@ -946,7 +946,7 @@ checksum = "254a5372af8fc138e36684761d3c0cdb758a4410e938babcff1c860ce14ddbfc"
 dependencies = [
  "proc-macro2",
  "quote",
- "syn 2.0.90",
+ "syn 2.0.91",
 ]
 
 [[package]]
@@ -1342,9 +1342,9 @@ dependencies = [
 
 [[package]]
 name = "redox_syscall"
-version = "0.5.7"
+version = "0.5.8"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "9b6dfecf2c74bce2466cabf93f6664d6998a69eb21e39f4207930065b27b771f"
+checksum = "03a862b389f93e68874fbf580b9de08dd02facb9a788ebadaf4a3fd33cf58834"
 dependencies = [
  "bitflags",
 ]
@@ -1391,15 +1391,15 @@ checksum = "2b15c43186be67a4fd63bee50d0303afffcef381492ebe2c5d87f324e1b8815c"
 
 [[package]]
 name = "rustix"
-version = "0.38.41"
+version = "0.38.42"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "d7f649912bc1495e167a6edee79151c84b1bad49748cb4f1f1167f459f6224f6"
+checksum = "f93dc38ecbab2eb790ff964bb77fa94faf256fd3e73285fd7ba0903b76bedb85"
 dependencies = [
  "bitflags",
  "errno",
  "libc",
  "linux-raw-sys",
- "windows-sys 0.52.0",
+ "windows-sys 0.59.0",
 ]
 
 [[package]]
@@ -1416,9 +1416,9 @@ checksum = "f3cb5ba0dc43242ce17de99c180e96db90b235b8a9fdc9543c96d2209116bd9f"
 
 [[package]]
 name = "safe_arch"
-version = "0.7.2"
+version = "0.7.4"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "c3460605018fdc9612bce72735cba0d27efbcd9904780d44c7e3a9948f96148a"
+checksum = "96b02de82ddbe1b636e6170c21be622223aea188ef2e139be0a5b219ec215323"
 dependencies = [
  "bytemuck",
 ]
@@ -1452,29 +1452,29 @@ checksum = "6ab8598aa408498679922eff7fa985c25d58a90771bd6be794434c5277eab1a6"
 
 [[package]]
 name = "serde"
-version = "1.0.215"
+version = "1.0.216"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "6513c1ad0b11a9376da888e3e0baa0077f1aed55c17f50e7b2397136129fb88f"
+checksum = "0b9781016e935a97e8beecf0c933758c97a5520d32930e460142b4cd80c6338e"
 dependencies = [
  "serde_derive",
 ]
 
 [[package]]
 name = "serde_derive"
-version = "1.0.215"
+version = "1.0.216"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "ad1e866f866923f252f05c889987993144fb74e722403468a4ebd70c3cd756c0"
+checksum = "46f859dbbf73865c6627ed570e78961cd3ac92407a2d117204c49232485da55e"
 dependencies = [
  "proc-macro2",
  "quote",
- "syn 2.0.90",
+ "syn 2.0.91",
 ]
 
 [[package]]
 name = "serde_json"
-version = "1.0.133"
+version = "1.0.134"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "c7fceb2473b9166b2294ef05efcb65a3db80803f0b03ef86a5fc88a2b85ee377"
+checksum = "d00f4175c42ee48b15416f6193a959ba3a0d67fc699a0db9ad12df9f83991c7d"
 dependencies = [
  "itoa",
  "memchr",
@@ -1593,7 +1593,7 @@ dependencies = [
  "proc-macro2",
  "quote",
  "rustversion",
- "syn 2.0.90",
+ "syn 2.0.91",
 ]
 
 [[package]]
@@ -1609,9 +1609,9 @@ dependencies = [
 
 [[package]]
 name = "syn"
-version = "2.0.90"
+version = "2.0.91"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "919d3b74a5dd0ccd15aeb8f93e7006bd9e14c295087c9896a110f490752bcf31"
+checksum = "d53cbcb5a243bd33b7858b1d7f4aca2153490815872d86d955d6ea29f743c035"
 dependencies = [
  "proc-macro2",
  "quote",
@@ -1656,11 +1656,11 @@ dependencies = [
 
 [[package]]
 name = "thiserror"
-version = "2.0.4"
+version = "2.0.9"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "2f49a1853cf82743e3b7950f77e0f4d622ca36cf4317cba00c767838bac8d490"
+checksum = "f072643fd0190df67a8bab670c20ef5d8737177d6ac6b2e9a236cb096206b2cc"
 dependencies = [
- "thiserror-impl 2.0.4",
+ "thiserror-impl 2.0.9",
 ]
 
 [[package]]
@@ -1671,18 +1671,18 @@ checksum = "4fee6c4efc90059e10f81e6d42c60a18f76588c3d74cb83a0b242a2b6c7504c1"
 dependencies = [
  "proc-macro2",
  "quote",
- "syn 2.0.90",
+ "syn 2.0.91",
 ]
 
 [[package]]
 name = "thiserror-impl"
-version = "2.0.4"
+version = "2.0.9"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "8381894bb3efe0c4acac3ded651301ceee58a15d47c2e34885ed1908ad667061"
+checksum = "7b50fa271071aae2e6ee85f842e2e28ba8cd2c5fb67f11fcb1fd70b276f9e7d4"
 dependencies = [
  "proc-macro2",
  "quote",
- "syn 2.0.90",
+ "syn 2.0.91",
 ]
 
 [[package]]
@@ -1754,7 +1754,7 @@ checksum = "560b82d656506509d43abe30e0ba64c56b1953ab3d4fe7ba5902747a7a3cedd5"
 dependencies = [
  "proc-macro2",
  "quote",
- "syn 2.0.90",
+ "syn 2.0.91",
 ]
 
 [[package]]
@@ -1769,12 +1769,6 @@ version = "1.0.14"
 source = "registry+https://github.com/rust-lang/crates.io-index"
 checksum = "adb9e6ca4f869e1180728b7950e35922a7fc6397f7b641499e8f3ef06e50dc83"
 
-[[package]]
-name = "unicode-width"
-version = "0.1.14"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "7dd6e30e90baa6f72411720665d41d89b9a3d039dc45b8faea1ddd07f617f6af"
-
 [[package]]
 name = "unicode-width"
 version = "0.2.0"
@@ -1801,9 +1795,9 @@ checksum = "9c8d87e72b64a3b4db28d11ce29237c246188f4f51057d65a7eab63b7987e423"
 
 [[package]]
 name = "wasm-bindgen"
-version = "0.2.97"
+version = "0.2.99"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "d15e63b4482863c109d70a7b8706c1e364eb6ea449b201a76c5b89cedcec2d5c"
+checksum = "a474f6281d1d70c17ae7aa6a613c87fce69a127e2624002df63dcb39d6cf6396"
 dependencies = [
  "cfg-if",
  "once_cell",
@@ -1812,24 +1806,23 @@ dependencies = [
 
 [[package]]
 name = "wasm-bindgen-backend"
-version = "0.2.97"
+version = "0.2.99"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "8d36ef12e3aaca16ddd3f67922bc63e48e953f126de60bd33ccc0101ef9998cd"
+checksum = "5f89bb38646b4f81674e8f5c3fb81b562be1fd936d84320f3264486418519c79"
 dependencies = [
  "bumpalo",
  "log",
- "once_cell",
  "proc-macro2",
  "quote",
- "syn 2.0.90",
+ "syn 2.0.91",
  "wasm-bindgen-shared",
 ]
 
 [[package]]
 name = "wasm-bindgen-macro"
-version = "0.2.97"
+version = "0.2.99"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "705440e08b42d3e4b36de7d66c944be628d579796b8090bfa3471478a2260051"
+checksum = "2cc6181fd9a7492eef6fef1f33961e3695e4579b9872a6f7c83aee556666d4fe"
 dependencies = [
  "quote",
  "wasm-bindgen-macro-support",
@@ -1837,22 +1830,22 @@ dependencies = [
 
 [[package]]
 name = "wasm-bindgen-macro-support"
-version = "0.2.97"
+version = "0.2.99"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "98c9ae5a76e46f4deecd0f0255cc223cfa18dc9b261213b8aa0c7b36f61b3f1d"
+checksum = "30d7a95b763d3c45903ed6c81f156801839e5ee968bb07e534c44df0fcd330c2"
 dependencies = [
  "proc-macro2",
  "quote",
- "syn 2.0.90",
+ "syn 2.0.91",
  "wasm-bindgen-backend",
  "wasm-bindgen-shared",
 ]
 
 [[package]]
 name = "wasm-bindgen-shared"
-version = "0.2.97"
+version = "0.2.99"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "6ee99da9c5ba11bd675621338ef6fa52296b76b83305e9b6e5c77d4c286d6d49"
+checksum = "943aab3fdaaa029a6e0271b35ea10b72b943135afe9bffca82384098ad0e06a6"
 
 [[package]]
 name = "web-time"
@@ -2005,7 +1998,7 @@ checksum = "fa4f8080344d4671fb4e831a13ad1e68092748387dfc4f55e356242fae12ce3e"
 dependencies = [
  "proc-macro2",
  "quote",
- "syn 2.0.90",
+ "syn 2.0.91",
 ]
 
 [[package]]
diff --git a/Cargo.toml b/Cargo.toml
index 628a87c..d1f424a 100644
--- a/Cargo.toml
+++ b/Cargo.toml
@@ -7,7 +7,7 @@ authors = [
   "Rob Patro <rob@cs.umd.edu>",
 ]
 name = "alevin-fry"
-version = "0.11.0"
+version = "0.11.1"
 edition = "2021"
 description = "A suite of tools for the rapid, accurate and memory-frugal processing single-cell and single-nucleus sequencing data."
 license-file = "LICENSE"
@@ -38,36 +38,36 @@ categories = ["command-line-utilities", "science"]
 # but when published, pull the specified version
 #libradicl = { git = "https://github.com/COMBINE-lab/libradicl", branch = "develop", version = "0.10.0" }
 libradicl = { version = "0.10.0" }
-anyhow = "1.0.86"
-arrayvec = "0.7.4"
+anyhow = "1.0.95"
+arrayvec = "0.7.6"
 ahash = "0.8.11"
 bincode = "1.3.3"
-bstr = "1.9.1"
-crossbeam-channel = "0.5.13"
-crossbeam-queue = "0.3.11"
+bstr = "1.11.1"
+crossbeam-channel = "0.5.14"
+crossbeam-queue = "0.3.12"
 typed-builder = "0.20.0"
-indicatif = "0.17.8"
-needletail = "0.6.0"
+indicatif = "0.17.9"
+needletail = "0.6.1"
 petgraph = "0.6.5"
-flate2 = "1.0.30"
+flate2 = "1.0.35"
 scroll = "0.12.0"
-serde = { version = "1.0.204", features = ["derive"] }
-serde_json = "1.0.120"
-sprs = "0.11.1"
+serde = { version = "1.0.216", features = ["derive"] }
+serde_json = "1.0.134"
+sprs = "0.11.2"
 slog = "2.7.0"
 slog-term = "2.9.1"
 slog-async = "2.8.0"
 smallvec = "1.13.2"
 snap = "1.1.1"
 rand = "0.8.5"
-chrono = "0.4.38"
-csv = "1.3.0"
+chrono = "0.4.39"
+csv = "1.3.1"
 mimalloc = { version = "0.1.43", default-features = false }
 num-format = "0.4.4"
 num_cpus = "1.16.0"
-bio-types = { version = "1.0.2", default-features = true, features = ["serde"] }
+bio-types = { version = "1.0.4", default-features = true, features = ["serde"] }
 itertools = "0.13.0"
-thiserror = "2.0.4"
+thiserror = "2.0.9"
 statrs = "0.18.0"
 #sce = { git = "https://github.com/parazodiac/SingleCellExperiment", branch = "dev", version = "0.2.0" }
 sce = { version = "0.2.0" }
@@ -87,7 +87,10 @@ clap = { version = "4.5.23", features = [
 noodles = { version = "0.85.0", features = ["bam", "bgzf", "sam"] }
 dashmap = { version = "6.1.0", features = ["serde", "inline"] }
 nalgebra = "0.33.2"
-niffler = { version = "2.6.0", default-features = false, features = ["gz", "gz_cloudflare_zlib"] }
+niffler = { version = "2.6.0", default-features = false, features = [
+  "gz",
+  "gz_cloudflare_zlib",
+] }
 
 [profile.release]
 #debug = true